Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A02
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 100057689
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3589301 characters in sequence are not A, C, G, or T
File 89 of 295
Found at i:28081564 original size:19 final size:19
Alignment explanation
Indices: 28081540--28081584 Score: 67
Period size: 19 Copynumber: 2.4 Consensus size: 19
28081530 TGAATTATTT
28081540 TAAGATTTATCTA-CATAAA
1 TAAGATTTATCTATC-TAAA
28081559 TAAGATTTATCTATCTAAA
1 TAAGATTTATCTATCTAAA
28081578 TAA-ATTT
1 TAAGATTT
28081585 GAAATATATC
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
18 4 0.16
19 20 0.80
20 1 0.04
ACGTcount: A:0.44, C:0.09, G:0.04, T:0.42
Consensus pattern (19 bp):
TAAGATTTATCTATCTAAA
Found at i:28103950 original size:55 final size:53
Alignment explanation
Indices: 28103850--28104049 Score: 188
Period size: 55 Copynumber: 3.7 Consensus size: 53
28103840 TTAAGGATAC
* * *
28103850 CATGTAAGACCATGCCAAGGCATGACAATTGGTAAGGTTTC-TAAGGCAAGGAAAT
1 CATGTAAGACCATGTCAAGACATGGC-ATTGGTAA-G-TTCATAAGGCAAGGAAAT
* * * ***
28103905 CATGTAAGACCATTTCAAGATATGGCATTGATAAGTTACTATAAGGCAAAGGTCCT
1 CATGTAAGACCATGTCAAGACATGGCATTGGTAAGTT-C-ATAAGGC-AAGGAAAT
* * * * * *
28103961 -ATGTCAGACCATGCCAAGGCATGGCATTGGTGAGTTCATAAGGCAAGGATAC
1 CATGTAAGACCATGTCAAGACATGGCATTGGTAAGTTCATAAGGCAAGGAAAT
*
28104013 CATGTAAGACCATGTCAAGACATGGCAATGGTAAGTT
1 CATGTAAGACCATGTCAAGACATGGCATTGGTAAGTT
28104050 TCAAAAGGAT
Statistics
Matches: 115, Mismatches: 25, Indels: 12
0.76 0.16 0.08
Matches are distributed among these distances:
52 6 0.05
53 40 0.35
54 8 0.07
55 56 0.49
56 5 0.04
ACGTcount: A:0.34, C:0.17, G:0.24, T:0.24
Consensus pattern (53 bp):
CATGTAAGACCATGTCAAGACATGGCATTGGTAAGTTCATAAGGCAAGGAAAT
Found at i:28104048 original size:108 final size:110
Alignment explanation
Indices: 28103851--28104049 Score: 287
Period size: 108 Copynumber: 1.8 Consensus size: 110
28103841 TAAGGATACC
*
28103851 ATGTAAGACCATGCCAAGGCATGACAATTGGTAAGGTTTCTAAGGCAAGGAAATCATGTAAGACC
1 ATGTAAGACCATGCCAAGGCATGACAATTGGTAAGGTTTCTAAGGCAAGGAAACCATGTAAGACC
* * *
28103916 ATTTCAAGATATGGCATTGATAAGTTACTATAAGGCAAAGGTCCT
66 ATGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTCCT
* * * *
28103961 ATGTCAGACCATGCCAAGGCATGGC-ATTGGTGA-G-TTCATAAGGCAAGGATACCATGTAAGAC
1 ATGTAAGACCATGCCAAGGCATGACAATTGGTAAGGTTTC-TAAGGCAAGGAAACCATGTAAGAC
*
28104023 CATGTCAAGACATGGCAATGGTAAGTT
65 CATGTCAAGACATGGCAATGATAAGTT
28104050 TCAAAAGGAT
Statistics
Matches: 79, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
107 3 0.04
108 46 0.58
109 7 0.09
110 23 0.29
ACGTcount: A:0.35, C:0.17, G:0.25, T:0.24
Consensus pattern (110 bp):
ATGTAAGACCATGCCAAGGCATGACAATTGGTAAGGTTTCTAAGGCAAGGAAACCATGTAAGACC
ATGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTCCT
Found at i:28113614 original size:30 final size:30
Alignment explanation
Indices: 28113580--28113640 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
28113570 TCCTTAACTC
28113580 AAACTTTGGAAAAATTACAATTTTTCCCCT
1 AAACTTTGGAAAAATTACAATTTTTCCCCT
* * * * *
28113610 AAACTTTTGCATATTTACACTTTTTCCCCT
1 AAACTTTGGAAAAATTACAATTTTTCCCCT
28113640 A
1 A
28113641 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.05, T:0.41
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTTCCCCT
Found at i:28119775 original size:16 final size:16
Alignment explanation
Indices: 28119754--28119806 Score: 97
Period size: 16 Copynumber: 3.3 Consensus size: 16
28119744 TTGGTTCGCT
28119754 GTAATGGAATAGAGGC
1 GTAATGGAATAGAGGC
*
28119770 GTAATGGAATAGAGAC
1 GTAATGGAATAGAGGC
28119786 GTAATGGAATAGAGGC
1 GTAATGGAATAGAGGC
28119802 GTAAT
1 GTAAT
28119807 AGCAATTCAA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 35 1.00
ACGTcount: A:0.40, C:0.06, G:0.34, T:0.21
Consensus pattern (16 bp):
GTAATGGAATAGAGGC
Found at i:28119887 original size:39 final size:43
Alignment explanation
Indices: 28119786--28119894 Score: 138
Period size: 45 Copynumber: 2.6 Consensus size: 43
28119776 GAATAGAGAC
28119786 GTAATGGAATAGAGGCGTAATAGCAATTCAATTGTTTGGTTGAAT
1 GTAATGGAATAGAGGCGTAATAGCAATTCAATTGTTTGGTT--AT
* *
28119831 GTAATGGAATAGAGGCGTAATAG-TATTC-TTGTGTTTGG-T-T
1 GTAATGGAATAGAGGCGTAATAGCAATTCAAT-TGTTTGGTTAT
28119871 G-AATGGAATAGAGGCGTAATAGCA
1 GTAATGGAATAGAGGCGTAATAGCA
28119895 GAAGGAAAAA
Statistics
Matches: 59, Mismatches: 3, Indels: 9
0.83 0.04 0.13
Matches are distributed among these distances:
39 21 0.36
40 2 0.03
43 2 0.03
44 11 0.19
45 23 0.39
ACGTcount: A:0.32, C:0.06, G:0.29, T:0.32
Consensus pattern (43 bp):
GTAATGGAATAGAGGCGTAATAGCAATTCAATTGTTTGGTTAT
Found at i:28120017 original size:11 final size:11
Alignment explanation
Indices: 28119998--28120030 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
28119988 TTAATATAAA
28119998 TAATAAATAATT
1 TAAT-AATAATT
28120010 TAATAATAATT
1 TAATAATAATT
28120021 TAA-AATAATT
1 TAATAATAATT
28120031 ATTATTAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 7 0.33
11 10 0.48
12 4 0.19
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (11 bp):
TAATAATAATT
Found at i:28120051 original size:24 final size:21
Alignment explanation
Indices: 28119975--28120088 Score: 79
Period size: 20 Copynumber: 5.1 Consensus size: 21
28119965 GTTATTAAAT
28119975 TTTAATAAGATTATTAATATAA
1 TTTAATAA-ATTATTAATATAA
* *
28119997 -ATAATAAATAATTTAATAATAA
1 TTTAATAAATTA-TTAAT-ATAA
28120019 TTTAAAATAATTATTATTAAATATAA
1 TTT--AATAA--ATTATT-AATATAA
** *
28120045 TTTAATAAAAAAAT-ATATAA
1 TTTAATAAATTATTAATATAA
*
28120065 TTTAATAAAATTCTTAATATAA
1 TTTAAT-AAATTATTAATATAA
28120087 TT
1 TT
28120089 ATTCTTATAT
Statistics
Matches: 71, Mismatches: 11, Indels: 20
0.70 0.11 0.20
Matches are distributed among these distances:
20 15 0.21
21 15 0.21
22 15 0.21
23 1 0.01
24 5 0.07
25 5 0.07
26 9 0.13
27 6 0.08
ACGTcount: A:0.55, C:0.01, G:0.01, T:0.43
Consensus pattern (21 bp):
TTTAATAAATTATTAATATAA
Found at i:28120088 original size:58 final size:56
Alignment explanation
Indices: 28119988--28120123 Score: 166
Period size: 58 Copynumber: 2.4 Consensus size: 56
28119978 AATAAGATTA
* *
28119988 TTAATATAAATAATAAATAATTTAATAATAATTTAAAATAATTATTATTAAATATAAT
1 TTAATA-AAAAAATATATAATTTAATAATAATTTAAAATAATTATTATTAAAT-TAAT
* * *
28120046 TTAATAAAAAAATATATAATTTAATAA-AATTCTTAATATAATTATTCTTATATTAAT
1 TTAATAAAAAAATATATAATTTAATAATAA-T-TTAAAATAATTATTATTAAATTAAT
*
28120103 TTACTAAAAATAATATATAAT
1 TTAATAAAAA-AATATATAAT
28120124 AATATAAAAA
Statistics
Matches: 69, Mismatches: 6, Indels: 6
0.85 0.07 0.07
Matches are distributed among these distances:
56 2 0.03
57 33 0.48
58 34 0.49
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.43
Consensus pattern (56 bp):
TTAATAAAAAAATATATAATTTAATAATAATTTAAAATAATTATTATTAAATTAAT
Found at i:28120528 original size:77 final size:77
Alignment explanation
Indices: 28120401--28120552 Score: 286
Period size: 77 Copynumber: 2.0 Consensus size: 77
28120391 TTTTTGTCCA
*
28120401 CTTTAATAATTGAACTTGACAATTAGATATATTTTAATCTTTGAACTTGAAATATATAAAATTTT
1 CTTTAATAATTCAACTTGACAATTAGATATATTTTAATCTTTGAACTTGAAATATATAAAATTTT
28120466 ATTGACATAACT
66 ATTGACATAACT
*
28120478 CTTTAATAATTCAACTTGACAATTAGATATATTTTAATCTTTGAACTTGAAATGTATAAAATTTT
1 CTTTAATAATTCAACTTGACAATTAGATATATTTTAATCTTTGAACTTGAAATATATAAAATTTT
28120543 ATTGACATAA
66 ATTGACATAA
28120553 AACTTTAAGA
Statistics
Matches: 73, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
77 73 1.00
ACGTcount: A:0.40, C:0.09, G:0.08, T:0.43
Consensus pattern (77 bp):
CTTTAATAATTCAACTTGACAATTAGATATATTTTAATCTTTGAACTTGAAATATATAAAATTTT
ATTGACATAACT
Found at i:28123109 original size:53 final size:54
Alignment explanation
Indices: 28123020--28123126 Score: 198
Period size: 53 Copynumber: 2.0 Consensus size: 54
28123010 GCAGTGAATT
28123020 TCAAAAACCACAACAAAATGACAGGGAAAAAATGAAAAAAGAGACCGAGAGAGA
1 TCAAAAACCACAACAAAATGACAGGGAAAAAATGAAAAAAGAGACCGAGAGAGA
*
28123074 TCAAAAACCACAAC-AAATGACAGGGAAAAAGTGAAAAAAGAGACCGAGAGAGA
1 TCAAAAACCACAACAAAATGACAGGGAAAAAATGAAAAAAGAGACCGAGAGAGA
28123127 GAATAGGTAA
Statistics
Matches: 52, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
53 38 0.73
54 14 0.27
ACGTcount: A:0.58, C:0.15, G:0.21, T:0.06
Consensus pattern (54 bp):
TCAAAAACCACAACAAAATGACAGGGAAAAAATGAAAAAAGAGACCGAGAGAGA
Found at i:28128973 original size:46 final size:45
Alignment explanation
Indices: 28128917--28129087 Score: 193
Period size: 46 Copynumber: 3.7 Consensus size: 45
28128907 ACATTTCATA
28128917 GCCGATGCATGTCCCAGACATGTCTTACACTGGCTTACATCTCGAG
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGCTT-CATCTCGAG
* *
28128963 GCCGATGCATGTCCCAGACATGTCTTACACTAGCGC-TCATCTCAAT
1 GCCGATGCATGTCCCAGACATGTCTTACACT-G-GCTTCATCTCGAG
* * * * * *
28129009 GTCGATGCCATGTCTCAGACATGGTCTTGCATTGGCTCTCATAAT-GTG
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCT-TCAT-CTCGAG
28129057 GCCGATGCATGTCCCAGACATGTCTTACACT
1 GCCGATGCATGTCCCAGACATGTCTTACACT
28129088 AGCTCACACA
Statistics
Matches: 104, Mismatches: 14, Indels: 14
0.79 0.11 0.11
Matches are distributed among these distances:
46 54 0.52
47 29 0.28
48 20 0.19
49 1 0.01
ACGTcount: A:0.22, C:0.29, G:0.21, T:0.28
Consensus pattern (45 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTGGCTTCATCTCGAG
Found at i:28137687 original size:47 final size:47
Alignment explanation
Indices: 28137634--28137827 Score: 280
Period size: 47 Copynumber: 4.1 Consensus size: 47
28137624 TTAGGATTTT
* ** * *
28137634 ATGTGATGAACGTGAATGTGTATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
28137681 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
28137728 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * * *
28137775 ATGTGGTGAATATGAACATGCATATATGTGGTAAAGCCGAATGGCTA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
28137822 ATGTGA
1 ATGTGA
28137828 AATATGTATG
Statistics
Matches: 132, Mismatches: 15, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 132 1.00
ACGTcount: A:0.33, C:0.11, G:0.29, T:0.26
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:28137734 original size:22 final size:22
Alignment explanation
Indices: 28137663--28137734 Score: 58
Period size: 22 Copynumber: 3.1 Consensus size: 22
28137653 GTATATATGA
28137663 GATAAGGCCGAATGGCCAATGT
1 GATAAGGCCGAATGGCCAATGT
* * *
28137685 GATGAATG-TGAACAT-GCATATATGT
1 GAT-AAGGCCG-A-ATGGC-CA-ATGT
28137710 GATAAGGCCGAATGGCCAATGT
1 GATAAGGCCGAATGGCCAATGT
28137732 GAT
1 GAT
28137735 GAATGTGAGC
Statistics
Matches: 37, Mismatches: 6, Indels: 14
0.65 0.11 0.25
Matches are distributed among these distances:
22 11 0.30
23 9 0.24
24 9 0.24
25 8 0.22
ACGTcount: A:0.33, C:0.14, G:0.29, T:0.24
Consensus pattern (22 bp):
GATAAGGCCGAATGGCCAATGT
Found at i:28137783 original size:25 final size:25
Alignment explanation
Indices: 28137708--28137783 Score: 63
Period size: 23 Copynumber: 3.2 Consensus size: 25
28137698 ATGCATATAT
28137708 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
* * * *
28137733 ATGA-ATGTG-AGCAT-G-CATATGT-
1 GTGATAAG-GCCGAATGGCCA-ATGTG
28137755 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
28137780 GTGA
1 GTGA
28137784 ATATGAACAT
Statistics
Matches: 36, Mismatches: 8, Indels: 14
0.62 0.14 0.24
Matches are distributed among these distances:
22 6 0.17
23 10 0.28
24 10 0.28
25 10 0.28
ACGTcount: A:0.29, C:0.13, G:0.34, T:0.24
Consensus pattern (25 bp):
GTGATAAGGCCGAATGGCCAATGTG
Found at i:28137956 original size:98 final size:96
Alignment explanation
Indices: 28137798--28137981 Score: 316
Period size: 98 Copynumber: 1.9 Consensus size: 96
28137788 GAACATGCAT
*
28137798 ATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGA
1 ATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATGTGGTAAAGCCGA
28137863 ATGGCTAATGTGAAATATGTATGAGATATGC
66 ATGGCTAATGTGAAATATGTATGAGATATGC
28137894 ATATGTGGTAAAGCCGAATGG-TCAATGTGAAATATATATATGAGATATGTATATGTGGTAAAGC
1 ATATGTGGTAAAGCCGAATGGCT-AATGTG-AA-ATATATATGAGATATGTATATGTGGTAAAGC
*
28137958 CGAATGGCTAGTGTGAAATATGTA
63 CGAATGGCTAATGTGAAATATGTA
28137982 GGCGATGTGC
Statistics
Matches: 83, Mismatches: 2, Indels: 4
0.93 0.02 0.04
Matches are distributed among these distances:
95 1 0.01
96 27 0.33
97 2 0.02
98 53 0.64
ACGTcount: A:0.36, C:0.07, G:0.27, T:0.30
Consensus pattern (96 bp):
ATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATGTGGTAAAGCCGA
ATGGCTAATGTGAAATATGTATGAGATATGC
Found at i:28137997 original size:50 final size:48
Alignment explanation
Indices: 28137797--28137981 Score: 309
Period size: 48 Copynumber: 3.8 Consensus size: 48
28137787 TGAACATGCA
28137797 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
28137845 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
* *
28137893 CATATGTGGTAAAGCCGAATGG-TCAATGTGAAATATATATATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCT-AATGTG-AA-ATATGTATGAGATATG
*
28137943 TATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTA
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTA
28137982 GGCGATGTGC
Statistics
Matches: 128, Mismatches: 5, Indels: 8
0.91 0.04 0.06
Matches are distributed among these distances:
47 1 0.01
48 81 0.63
49 4 0.03
50 41 0.32
51 1 0.01
ACGTcount: A:0.36, C:0.07, G:0.26, T:0.31
Consensus pattern (48 bp):
TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
Found at i:28138236 original size:37 final size:37
Alignment explanation
Indices: 28138131--28138236 Score: 176
Period size: 37 Copynumber: 2.9 Consensus size: 37
28138121 AATATATTCT
*
28138131 GGGTAAGACCCGATGACTACGTGTGGAGATTATGTCC
1 GGGTAAGACCCGATGACTACGTGTGGAGATTTTGTCC
*
28138168 GGGTAAGACCCGATGACTACGCGTGGAGATTTTGTCC
1 GGGTAAGACCCGATGACTACGTGTGGAGATTTTGTCC
* *
28138205 GGGTAAGACCCGATAACTTCGTGTGGAGATTT
1 GGGTAAGACCCGATGACTACGTGTGGAGATTT
28138237 CGTCTGAGCT
Statistics
Matches: 64, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 64 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
GGGTAAGACCCGATGACTACGTGTGGAGATTTTGTCC
Found at i:28155287 original size:20 final size:20
Alignment explanation
Indices: 28155241--28155288 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
28155231 AGTAAGCTCG
28155241 GTTGAGCTCAAACGAGCTGA
1 GTTGAGCTCAAACGAGCTGA
*** * *
28155261 AACGAGCTTAAATGAGCTGA
1 GTTGAGCTCAAACGAGCTGA
28155281 GTTGAGCT
1 GTTGAGCT
28155289 GGACGAAGCT
Statistics
Matches: 20, Mismatches: 8, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.31, C:0.17, G:0.29, T:0.23
Consensus pattern (20 bp):
GTTGAGCTCAAACGAGCTGA
Found at i:28157042 original size:18 final size:21
Alignment explanation
Indices: 28157016--28157054 Score: 57
Period size: 19 Copynumber: 2.0 Consensus size: 21
28157006 TCAAACTCAA
28157016 TTTCTTTTTCA-ATT-TTTTT
1 TTTCTTTTTCACATTCTTTTT
28157035 TTTC-TTTTCACATTCTTTTT
1 TTTCTTTTTCACATTCTTTTT
28157055 CACTCTCGAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 6 0.33
19 7 0.39
20 5 0.28
ACGTcount: A:0.10, C:0.15, G:0.00, T:0.74
Consensus pattern (21 bp):
TTTCTTTTTCACATTCTTTTT
Found at i:28157075 original size:6 final size:6
Alignment explanation
Indices: 28157066--28157113 Score: 51
Period size: 6 Copynumber: 7.8 Consensus size: 6
28157056 ACTCTCGATC
* * **
28157066 TCTTTT TCTTTT TCCTTC TCTTTT TCTTTT TCACTT TCTTTT TGCTTT
1 TCTTTT TCTTTT TCTTTT TCTTTT TCTTTT TCTTTT TCTTTT T-CTTT
28157114 CTTTCACACT
Statistics
Matches: 33, Mismatches: 8, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
6 29 0.88
7 4 0.12
ACGTcount: A:0.02, C:0.23, G:0.02, T:0.73
Consensus pattern (6 bp):
TCTTTT
Found at i:28157075 original size:24 final size:21
Alignment explanation
Indices: 28157047--28157113 Score: 63
Period size: 18 Copynumber: 3.3 Consensus size: 21
28157037 TCTTTTCACA
28157047 TTCTTTTTCACTCTCGATCTCTTT
1 TTCTTTTTCACTCT---TCTCTTT
28157071 TTCTTTTT--C-CTTCTCTTT
1 TTCTTTTTCACTCTTCTCTTT
28157089 TTCTTTTTCACT-TTCT-TTT
1 TTCTTTTTCACTCTTCTCTTT
*
28157108 TGCTTT
1 TTCTTT
28157114 CTTTCACACT
Statistics
Matches: 39, Mismatches: 1, Indels: 11
0.76 0.02 0.22
Matches are distributed among these distances:
18 15 0.38
19 8 0.21
20 5 0.13
21 2 0.05
22 1 0.03
24 8 0.21
ACGTcount: A:0.04, C:0.25, G:0.03, T:0.67
Consensus pattern (21 bp):
TTCTTTTTCACTCTTCTCTTT
Found at i:28157085 original size:18 final size:19
Alignment explanation
Indices: 28157064--28157133 Score: 83
Period size: 18 Copynumber: 3.7 Consensus size: 19
28157054 TCACTCTCGA
28157064 TCTCTTTTTCTTTTTC-CT
1 TCTCTTTTTCTTTTTCACT
28157082 TCTCTTTTTCTTTTTCACT
1 TCTCTTTTTCTTTTTCACT
28157101 T-TCTTTTTGCTTTCTTTCAC-
1 TCTCTTTTT-C-TT-TTTCACT
*
28157121 ACTCTTTTTCTTT
1 TCTCTTTTTCTTT
28157134 GATTTCTTTT
Statistics
Matches: 46, Mismatches: 1, Indels: 10
0.81 0.02 0.18
Matches are distributed among these distances:
18 24 0.52
19 6 0.13
20 3 0.07
21 13 0.28
ACGTcount: A:0.04, C:0.26, G:0.01, T:0.69
Consensus pattern (19 bp):
TCTCTTTTTCTTTTTCACT
Found at i:28157120 original size:21 final size:20
Alignment explanation
Indices: 28157083--28157133 Score: 61
Period size: 21 Copynumber: 2.6 Consensus size: 20
28157073 CTTTTTCCTT
*
28157083 CTCTTTTTC-TT-TTTCACT
1 CTCTTTTTCTTTCTTTCACA
*
28157101 TTCTTTTTGCTTTCTTTCACA
1 CTCTTTTT-CTTTCTTTCACA
28157122 CTCTTTTTCTTT
1 CTCTTTTTCTTT
28157134 GATTTCTTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
18 7 0.26
19 1 0.04
20 6 0.22
21 13 0.48
ACGTcount: A:0.06, C:0.25, G:0.02, T:0.67
Consensus pattern (20 bp):
CTCTTTTTCTTTCTTTCACA
Found at i:28159674 original size:10 final size:10
Alignment explanation
Indices: 28159661--28159695 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
28159651 AAGCTCGGTT
28159661 GAGCTCAAAC
1 GAGCTCAAAC
*
28159671 GAGCTGAAAC
1 GAGCTCAAAC
*
28159681 GAGCTCAAAT
1 GAGCTCAAAC
28159691 GAGCT
1 GAGCT
28159696 GAGTTGAGCT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.37, C:0.23, G:0.26, T:0.14
Consensus pattern (10 bp):
GAGCTCAAAC
Found at i:28159704 original size:20 final size:20
Alignment explanation
Indices: 28159658--28159705 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
28159648 AGTAAGCTCG
28159658 GTTGAGCTCAAACGAGCTGA
1 GTTGAGCTCAAACGAGCTGA
*** *
28159678 AACGAGCTCAAATGAGCTGA
1 GTTGAGCTCAAACGAGCTGA
28159698 GTTGAGCT
1 GTTGAGCT
28159706 GGACAGAGCT
Statistics
Matches: 21, Mismatches: 7, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.31, C:0.19, G:0.29, T:0.21
Consensus pattern (20 bp):
GTTGAGCTCAAACGAGCTGA
Found at i:28161160 original size:40 final size:40
Alignment explanation
Indices: 28161103--28161178 Score: 107
Period size: 40 Copynumber: 1.9 Consensus size: 40
28161093 GCCAGGTCAA
*
28161103 GTGCAAGACACAGCCGTGTGAATGTCGTACGTGTGGCTGT
1 GTGCAAGACACAACCGTGTGAATGTCGTACGTGTGGCTGT
* * * *
28161143 GTGCAAGACATAACCGTGTGATTGTTGTAGGTGTGG
1 GTGCAAGACACAACCGTGTGAATGTCGTACGTGTGG
28161179 TAGTGCGTGA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 31 1.00
ACGTcount: A:0.21, C:0.16, G:0.36, T:0.28
Consensus pattern (40 bp):
GTGCAAGACACAACCGTGTGAATGTCGTACGTGTGGCTGT
Found at i:28173042 original size:42 final size:42
Alignment explanation
Indices: 28172995--28173076 Score: 155
Period size: 42 Copynumber: 2.0 Consensus size: 42
28172985 AGACTGACCA
28172995 TCAGTCTGAGGGTTAAAAGCTATGCTAAAGCTCAACTTCGGG
1 TCAGTCTGAGGGTTAAAAGCTATGCTAAAGCTCAACTTCGGG
*
28173037 TCAGTCTGAGGGTTAAAAGCTGTGCTAAAGCTCAACTTCG
1 TCAGTCTGAGGGTTAAAAGCTATGCTAAAGCTCAACTTCG
28173077 CACCCAAGGC
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.28, C:0.20, G:0.26, T:0.27
Consensus pattern (42 bp):
TCAGTCTGAGGGTTAAAAGCTATGCTAAAGCTCAACTTCGGG
Found at i:28181058 original size:45 final size:45
Alignment explanation
Indices: 28180990--28181122 Score: 185
Period size: 45 Copynumber: 3.0 Consensus size: 45
28180980 TATCGAACAG
28180990 TACTATTCAGGCCTTTGAGCCTAGCAGGCTATGATGCCGGTGAAA
1 TACTATTCAGGCCTTTGAGCCTAGCAGGCTATGATGCCGGTGAAA
** * * *
28181035 TACTATTTGGGCCTTTAAACCTAGCAGGCTATGATGCCGGTGAGA
1 TACTATTCAGGCCTTTGAGCCTAGCAGGCTATGATGCCGGTGAAA
* * * *
28181080 TACTATTCAAGCCCTCGAGCCTAGCAGGCTATAATGCCGGTGA
1 TACTATTCAGGCCTTTGAGCCTAGCAGGCTATGATGCCGGTGA
28181123 TTTGATAAAA
Statistics
Matches: 75, Mismatches: 13, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
45 75 1.00
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.26
Consensus pattern (45 bp):
TACTATTCAGGCCTTTGAGCCTAGCAGGCTATGATGCCGGTGAAA
Found at i:28181628 original size:16 final size:18
Alignment explanation
Indices: 28181597--28181629 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
28181587 AACTCGTCAC
28181597 ACTATCTATCGTTTTGGT
1 ACTATCTATCGTTTTGGT
28181615 ACTAT-TAT-GTTTTGG
1 ACTATCTATCGTTTTGG
28181630 ATCTAGTATG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 3 0.20
18 5 0.33
ACGTcount: A:0.18, C:0.12, G:0.18, T:0.52
Consensus pattern (18 bp):
ACTATCTATCGTTTTGGT
Found at i:28183087 original size:20 final size:20
Alignment explanation
Indices: 28182916--28183079 Score: 265
Period size: 20 Copynumber: 8.2 Consensus size: 20
28182906 GAGGCAATGC
28182916 ACACGCCCGTGTGCATTGGG
1 ACACGCCCGTGTGCATTGGG
* * * *
28182936 ACATGCCCGTGTTCGTTAGG
1 ACACGCCCGTGTGCATTGGG
*
28182956 ACACACCCGTGTGCATTGGG
1 ACACGCCCGTGTGCATTGGG
28182976 ACACGCCCGTGTGCATTGGG
1 ACACGCCCGTGTGCATTGGG
28182996 ACACGCCCGTGTGCATTGGG
1 ACACGCCCGTGTGCATTGGG
28183016 ACACGCCCGTGTGCATTGGG
1 ACACGCCCGTGTGCATTGGG
28183036 ACACGCCCGTGTGCATTGGG
1 ACACGCCCGTGTGCATTGGG
* *
28183056 ACACACCTGTGTGCATTGGG
1 ACACGCCCGTGTGCATTGGG
28183076 ACAC
1 ACAC
28183080 ACCTGTGTCC
Statistics
Matches: 132, Mismatches: 12, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 132 1.00
ACGTcount: A:0.17, C:0.29, G:0.32, T:0.21
Consensus pattern (20 bp):
ACACGCCCGTGTGCATTGGG
Found at i:28186023 original size:20 final size:19
Alignment explanation
Indices: 28185978--28186015 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
28185968 GAGTGAAAGG
28185978 AACGAG-AAACGGGCCAAA
1 AACGAGAAAACGGGCCAAA
*
28185996 AACGGAGAAAATGGGCCAAA
1 AAC-GAGAAAACGGGCCAAA
28186016 GTACGAGATC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 3 0.18
19 3 0.18
20 11 0.65
ACGTcount: A:0.50, C:0.18, G:0.29, T:0.03
Consensus pattern (19 bp):
AACGAGAAAACGGGCCAAA
Found at i:28195302 original size:377 final size:377
Alignment explanation
Indices: 28194608--28195360 Score: 1319
Period size: 377 Copynumber: 2.0 Consensus size: 377
28194598 TTCAGAATAG
*
28194608 TCCTTGAGTATATTTGGGTCATGTTAAATGCAATTGGAGTTCTTATATGTGAGGAAATGATAAGG
1 TCCTTGAGTATATTTGGGTCATGTTAAATGCAATTGGACTTCTTATATGTGAGGAAATGATAAGG
* * *
28194673 GTGACCATTGGCTTGAAATTATAGCCTAAAAAGGGTCCACACGGGTAGACACACGGGCGTGTGTC
66 ATGACCATTAGCTTGAAATTATAGCCTAAAAAGGGTCCACACGGGCAGACACACGGGCGTGTGTC
* * * *
28194738 TTGGCCATGTGTAACACATGGTCAACCCCATGGGCGTGTGGTACGGCCGTGCGTCCCCTGCACCC
131 TAGGCCATGTGTAACACATGGTCAACCCCATGGACATGTGGTACGACCGTGCGTCCCCTGCACCC
*
28194803 CAAATTTCTTTAGTCAGAATGCATGGTAGTAAAAACATGGGAAGAGACACGGCCGTGTGTCTCAA
196 CAAATTTCTTTAGTCAGAATGCATGGTAGTAAAAACATGGGAAAAGACACGGCCGTGTGTCTCAA
*
28194868 CCGTGTAGAGGGCACGGCCTAGCACACGGGTGTTTGTCTTGGCTGTGTGCCCCTAAATACATGCT
261 CCGTGTAGAGGGCACGGCCTAGCACACGGGTGTGTGTCTTGGCTGTGTGCCCCTAAATACATGCT
*
28194933 GACGTCATAAACAGAATGTTTGGGTTTTTGGACACGGGAGACCACACGGGCT
326 AACGTCATAAACAGAATGTTTGGGTTTTTGGACACGGGAGACCACACGGGCT
28194985 TCCTTGAGTATATTTGGGTCATGTTAAATGCAATTGGACTTCTTATATGTGAGGAAATGATAAGG
1 TCCTTGAGTATATTTGGGTCATGTTAAATGCAATTGGACTTCTTATATGTGAGGAAATGATAAGG
28195050 ATGACCATTAGCTTGAAATTATAGCCTAAAAAGGGTCCACACGGGCAGACACACGGGCGTGTGTC
66 ATGACCATTAGCTTGAAATTATAGCCTAAAAAGGGTCCACACGGGCAGACACACGGGCGTGTGTC
* * * *
28195115 TAGGTCGTGTGTGACACATGGTCAACCCCATGGACATGTGGTACGACCGTGTGTCCCCTAG-ACC
131 TAGGCCATGTGTAACACATGGTCAACCCCATGGACATGTGGTACGACCGTGCGTCCCCT-GCACC
* *
28195179 CCAAATTTCTTTAGTCAGAATGCTTGGTAGTAAAAACATGGGAAAAGACATGGCCGTGTGTCTCA
195 CCAAATTTCTTTAGTCAGAATGCATGGTAGTAAAAACATGGGAAAAGACACGGCCGTGTGTCTCA
28195244 ACCGTGTAGAGGGCACGGCCTAGCACACGGGTGTGTGTCTTGGCTGTGTGCCCCTAAATACATGC
260 ACCGTGTAGAGGGCACGGCCTAGCACACGGGTGTGTGTCTTGGCTGTGTGCCCCTAAATACATGC
* *
28195309 TAACGTCATAAACAGAATGTTTGGGTTTTTGGACATGGGAGACCATACGGGC
325 TAACGTCATAAACAGAATGTTTGGGTTTTTGGACACGGGAGACCACACGGGC
28195361 GTGTCTAGGC
Statistics
Matches: 356, Mismatches: 19, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
377 355 1.00
378 1 0.00
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (377 bp):
TCCTTGAGTATATTTGGGTCATGTTAAATGCAATTGGACTTCTTATATGTGAGGAAATGATAAGG
ATGACCATTAGCTTGAAATTATAGCCTAAAAAGGGTCCACACGGGCAGACACACGGGCGTGTGTC
TAGGCCATGTGTAACACATGGTCAACCCCATGGACATGTGGTACGACCGTGCGTCCCCTGCACCC
CAAATTTCTTTAGTCAGAATGCATGGTAGTAAAAACATGGGAAAAGACACGGCCGTGTGTCTCAA
CCGTGTAGAGGGCACGGCCTAGCACACGGGTGTGTGTCTTGGCTGTGTGCCCCTAAATACATGCT
AACGTCATAAACAGAATGTTTGGGTTTTTGGACACGGGAGACCACACGGGCT
Found at i:28201097 original size:30 final size:30
Alignment explanation
Indices: 28201063--28201123 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
28201053 TCCTTAACTC
28201063 AAACTTTGGCAAAATTACAATTTTGCCCCT
1 AAACTTTGGCAAAATTACAATTTTGCCCCT
* * * *
28201093 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGCAAAATTACAATTTTGCCCCT
28201123 A
1 A
28201124 TGTTCGGGGA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGCAAAATTACAATTTTGCCCCT
Found at i:28209439 original size:31 final size:31
Alignment explanation
Indices: 28209396--28209455 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
28209386 CCTTTTCATA
28209396 TTTCATAATTCATAACACTGGGCCGAAGCTT
1 TTTCATAATTCATAACACTGGGCCGAAGCTT
* **
28209427 TTTCATATTTCATATTACTGGGCCGAAGC
1 TTTCATAATTCATAACACTGGGCCGAAGC
28209456 CTTTACTGTA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.27, C:0.22, G:0.17, T:0.35
Consensus pattern (31 bp):
TTTCATAATTCATAACACTGGGCCGAAGCTT
Found at i:28209728 original size:23 final size:24
Alignment explanation
Indices: 28209652--28209771 Score: 174
Period size: 24 Copynumber: 5.0 Consensus size: 24
28209642 GCTTTATCAT
*
28209652 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
28209677 ATAACTGGGGCA-AAGCCCTTTTTTA
1 ATAACTGGGGCATAAGCCC--TTTTA
28209702 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
28209725 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
28209749 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
28209772 GCACTTCCTC
Statistics
Matches: 89, Mismatches: 1, Indels: 11
0.88 0.01 0.11
Matches are distributed among these distances:
23 24 0.27
24 34 0.38
25 25 0.28
26 6 0.07
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.30
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:28209759 original size:47 final size:47
Alignment explanation
Indices: 28209673--28209770 Score: 171
Period size: 47 Copynumber: 2.1 Consensus size: 47
28209663 CCTAGCCTCT
28209673 TTTAATAACTGGGGCAAAGCCCTTTTTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCAAAGCCC-TTTTTAATAACTGGGGCATAAGCCC
28209721 TTTAATAACTGGGGCATAAGCCC-TTTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCA-AAGCCCTTTTTAATAACTGGGGCATAAGCCC
28209768 TTT
1 TTT
28209771 TGCACTTCCT
Statistics
Matches: 49, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
47 27 0.55
48 16 0.33
49 6 0.12
ACGTcount: A:0.29, C:0.20, G:0.20, T:0.31
Consensus pattern (47 bp):
TTTAATAACTGGGGCAAAGCCCTTTTTAATAACTGGGGCATAAGCCC
Found at i:28209842 original size:20 final size:20
Alignment explanation
Indices: 28209817--28209887 Score: 115
Period size: 20 Copynumber: 3.5 Consensus size: 20
28209807 GCATTTATGA
*
28209817 ACATATCGTGTGCATATCAT
1 ACATATCATGTGCATATCAT
*
28209837 ACATATCATGTGCATGTCAT
1 ACATATCATGTGCATATCAT
*
28209857 ACATGTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
28209877 ACATATCATGT
1 ACATATCATGT
28209888 TTATCAAAAT
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 46 1.00
ACGTcount: A:0.31, C:0.20, G:0.14, T:0.35
Consensus pattern (20 bp):
ACATATCATGTGCATATCAT
Found at i:28209966 original size:25 final size:25
Alignment explanation
Indices: 28209924--28209971 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
28209914 ATATATAAAC
* * *
28209924 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
*
28209949 CCTAGGGGCAAAACGGTCGTTTT
1 CCTAGGGGCAAAACGGTCATTTT
28209972 CATATTATAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.23, C:0.17, G:0.27, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:28217097 original size:51 final size:51
Alignment explanation
Indices: 28217029--28217204 Score: 170
Period size: 51 Copynumber: 3.6 Consensus size: 51
28217019 CACATCTATA
* * * *
28217029 ATGAACTTGGTCCTCTCAATGAGCTCGGATGTTACATGAATTTCATCCATT
1 ATGAACTCGGACCTCTCAACGAGCTCGGATGTTACATGAATCTCATCCATT
* * * * *
28217080 ATGAATTCGGACTTCTCAACGAGCTTGGA-G------G-CTCTCATCCATA
1 ATGAACTCGGACCTCTCAACGAGCTCGGATGTTACATGAATCTCATCCATT
* * *
28217123 ATGAACTCGGACCTCTCAATGAGCTCAGATGTTACATGAATCGCATCCATT
1 ATGAACTCGGACCTCTCAACGAGCTCGGATGTTACATGAATCTCATCCATT
* *
28217174 ATGAACTCGGACCCCTCAACAAGCTCGGATG
1 ATGAACTCGGACCTCTCAACGAGCTCGGATG
28217205 CCACATATCT
Statistics
Matches: 96, Mismatches: 21, Indels: 16
0.72 0.16 0.12
Matches are distributed among these distances:
43 33 0.34
44 2 0.02
50 2 0.02
51 59 0.61
ACGTcount: A:0.27, C:0.26, G:0.19, T:0.28
Consensus pattern (51 bp):
ATGAACTCGGACCTCTCAACGAGCTCGGATGTTACATGAATCTCATCCATT
Found at i:28217192 original size:94 final size:94
Alignment explanation
Indices: 28217021--28217198 Score: 266
Period size: 94 Copynumber: 1.9 Consensus size: 94
28217011 ACATGTAACA
* * * * ** *
28217021 CATCTATAATGAACTTGGTCCTCTCAATGAGCTCGGATGTTACATGAATTTCATCCATTATGAAT
1 CATCCATAATGAACTCGGACCTCTCAATGAGCTCAGATGTTACATGAATCGCATCCATTATGAAC
** *
28217086 TCGGACTTCTCAACGAGCTTGGAGGCTCT
66 TCGGACCCCTCAACAAGCTTGGAGGCTCT
28217115 CATCCATAATGAACTCGGACCTCTCAATGAGCTCAGATGTTACATGAATCGCATCCATTATGAAC
1 CATCCATAATGAACTCGGACCTCTCAATGAGCTCAGATGTTACATGAATCGCATCCATTATGAAC
28217180 TCGGACCCCTCAACAAGCT
66 TCGGACCCCTCAACAAGCT
28217199 CGGATGCCAC
Statistics
Matches: 74, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
94 74 1.00
ACGTcount: A:0.28, C:0.26, G:0.17, T:0.29
Consensus pattern (94 bp):
CATCCATAATGAACTCGGACCTCTCAATGAGCTCAGATGTTACATGAATCGCATCCATTATGAAC
TCGGACCCCTCAACAAGCTTGGAGGCTCT
Found at i:28220045 original size:50 final size:50
Alignment explanation
Indices: 28219970--28220206 Score: 221
Period size: 50 Copynumber: 4.7 Consensus size: 50
28219960 TGAATACACG
* * * *
28219970 TGTGTAGTATTAAGTGCAGGCTACTATGTATACCATACTGTTAAGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGACTGTTAAGTCACA
* ** *
28220020 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACTCAATGACT-TCGA-TCACG
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTAC-C-A-GACTGTTAAGTCACA
* * * * *
28220071 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGA-TGGTGAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGACT-GTTAAGTCACA
* * * * * *
28220121 TGTGTAGTACTAAGTGCAGACTACTACGTGTACCGGATTGTT-GGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGACTGTTAAGTCACA
* *
28220170 TGTGTAGTACTAAGTGCAGGCTACTATGCGTATCAGA
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGA
28220207 TAGCTTCGGC
Statistics
Matches: 155, Mismatches: 25, Indels: 15
0.79 0.13 0.08
Matches are distributed among these distances:
47 1 0.01
48 2 0.01
49 39 0.25
50 72 0.46
51 35 0.23
52 3 0.02
53 3 0.02
ACGTcount: A:0.25, C:0.18, G:0.27, T:0.30
Consensus pattern (50 bp):
TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGACTGTTAAGTCACA
Found at i:28220145 original size:101 final size:97
Alignment explanation
Indices: 28219966--28220207 Score: 261
Period size: 101 Copynumber: 2.4 Consensus size: 97
28219956 ATTGTGAATA
* * * * * *
28219966 CACGTGTGTAGTATTAAGTGCAGGCTACTATGTATACCATACTGTTAAGTCGCATGTGTAGTACT
1 CACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTATCAGA-TGTGAAGTCACATGTGTAGTACT
* *
28220031 AAGTGCAGGCTACTATGCGTACTC-AATGACTTCGAT
65 AAGTGCAGACTACTACGCGTAC-CGAATG--TT-GAT
* * *
28220067 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTGAGGTCACGTGTGTAGTACT
1 CACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTATCAGAT-GTGAAGTCACATGTGTAGTACT
* * *
28220132 AAGTGCAGACTACTACGTGTACCGGATTGTTGGT
65 AAGTGCAGACTACTACGCGTACC-GAATGTTGAT
* * *
28220166 CGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTATCAGAT
1 CACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTATCAGAT
28220208 AGCTTCGGCT
Statistics
Matches: 120, Mismatches: 18, Indels: 8
0.82 0.12 0.05
Matches are distributed among these distances:
99 40 0.33
100 4 0.03
101 73 0.61
102 3 0.03
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.30
Consensus pattern (97 bp):
CACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTATCAGATGTGAAGTCACATGTGTAGTACTA
AGTGCAGACTACTACGCGTACCGAATGTTGAT
Found at i:28220325 original size:27 final size:26
Alignment explanation
Indices: 28220295--28220346 Score: 61
Period size: 26 Copynumber: 2.0 Consensus size: 26
28220285 GGGAAAATCG
28220295 ATAAAGTGGTAATATGT-GAAAGTTATT
1 ATAAAGTGG--ATATGTGGAAAGTTATT
* *
28220322 ATAAGGTGGATATGTGGAAATTTAT
1 ATAAAGTGGATATGTGGAAAGTTAT
28220347 GTTTATGAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
25 6 0.27
26 8 0.36
27 8 0.36
ACGTcount: A:0.38, C:0.00, G:0.25, T:0.37
Consensus pattern (26 bp):
ATAAAGTGGATATGTGGAAAGTTATT
Found at i:28227697 original size:49 final size:50
Alignment explanation
Indices: 28227579--28227701 Score: 185
Period size: 50 Copynumber: 2.5 Consensus size: 50
28227569 CAATCATGTA
* *
28227579 TGTAGTACTAAGTGCAGGCTACTACATGTATCAGATGGTGAGGTCACGTG
1 TGTAGTACTAAGTGCAGGCTACTACATCTATCAGATGGTGAGGTCACATG
* * * *
28227629 TGTAGTACTAAGTGTAGGCTACTACATCTATCGGATGGT-TGGTCGCATG
1 TGTAGTACTAAGTGCAGGCTACTACATCTATCAGATGGTGAGGTCACATG
28227678 TGTAGTACTAAGTGCAGGCTACTA
1 TGTAGTACTAAGTGCAGGCTACTA
28227702 TGCGTATCAG
Statistics
Matches: 66, Mismatches: 7, Indels: 1
0.89 0.09 0.01
Matches are distributed among these distances:
49 30 0.45
50 36 0.55
ACGTcount: A:0.25, C:0.16, G:0.28, T:0.30
Consensus pattern (50 bp):
TGTAGTACTAAGTGCAGGCTACTACATCTATCAGATGGTGAGGTCACATG
Found at i:28229835 original size:34 final size:34
Alignment explanation
Indices: 28229792--28229856 Score: 121
Period size: 34 Copynumber: 1.9 Consensus size: 34
28229782 TAGAAGGAGC
28229792 GTTACCCGATCTCACACCTTGATCTCTATCTAGA
1 GTTACCCGATCTCACACCTTGATCTCTATCTAGA
*
28229826 GTTACCCGATTTCACACCTTGATCTCTATCT
1 GTTACCCGATCTCACACCTTGATCTCTATCT
28229857 TTCTCGACCA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 30 1.00
ACGTcount: A:0.22, C:0.32, G:0.11, T:0.35
Consensus pattern (34 bp):
GTTACCCGATCTCACACCTTGATCTCTATCTAGA
Found at i:28230948 original size:24 final size:24
Alignment explanation
Indices: 28230916--28230962 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
28230906 AGCGGGAGCC
*
28230916 GGCACATTACTCTCTATATCATCT
1 GGCACATTACTCTCTACATCATCT
28230940 GGCACATTACTCTCTACATCATC
1 GGCACATTACTCTCTACATCATC
28230963 CGCCACTGCT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.26, C:0.32, G:0.09, T:0.34
Consensus pattern (24 bp):
GGCACATTACTCTCTACATCATCT
Found at i:28232778 original size:48 final size:48
Alignment explanation
Indices: 28232651--28232936 Score: 278
Period size: 48 Copynumber: 6.0 Consensus size: 48
28232641 CAATGGGTAA
* *
28232651 AATACCGATGCCATGTCCCTGACATGGTCTTACACTGGCTCT-CATAATC
1 AATACTGATGCCATGTCCCAGACATGGTCTTACACTGGCT-TACATAA-C
** * **
28232700 GGTGCCAATGCCATGTCCCAGACATGGTCTTACACTGGCTTACATAAC
1 AATACTGATGCCATGTCCCAGACATGGTCTTACACTGGCTTACATAAC
28232748 AATACTGATGCCATGTCCCAGACATGGTCTTACACTGGCTTACATAAC
1 AATACTGATGCCATGTCCCAGACATGGTCTTACACTGGCTTACATAAC
* ** * * * *
28232796 AATACTGATACCATGTTTCAAACATGGTCTTACATTGGCTCACATATC
1 AATACTGATGCCATGTCCCAGACATGGTCTTACACTGGCTTACATAAC
* * *
28232844 AAGGT-C-GACGCCATGTCCCA-ACATGGTCTTACACTAGCTCT-CACAAC
1 AA--TACTGATGCCATGTCCCAGACATGGTCTTACACTGGCT-TACATAAC
* * * * *
28232891 AAT-GTCGATGCCATGTTCCAAACATGGTCTTACATTGGCTCACATA
1 AATACT-GATGCCATGTCCCAGACATGGTCTTACACTGGCTTACATA
28232937 TAACCCTAAT
Statistics
Matches: 196, Mismatches: 33, Indels: 17
0.80 0.13 0.07
Matches are distributed among these distances:
45 1 0.01
47 35 0.18
48 118 0.60
49 41 0.21
50 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.28
Consensus pattern (48 bp):
AATACTGATGCCATGTCCCAGACATGGTCTTACACTGGCTTACATAAC
Found at i:28232914 original size:95 final size:95
Alignment explanation
Indices: 28232651--28232937 Score: 321
Period size: 95 Copynumber: 3.0 Consensus size: 95
28232641 CAATGGGTAA
* * * ** * *
28232651 AATACCGATGCCATGTCCCTGACATGGTCTTACACTGGCTCTCATAATCGGTGCCAATGCCATGT
1 AATACTGACGCCATGTCCC-AACATGGTCTTACACTGGCTCTCATAA-CAATGACGATGCCATGT
* * * * *
28232716 CCCAGACATGGTCTTACACTGGCTTACATAAC
64 TCCAAACATGGTCTTACATTGGCTCACATATC
* *
28232748 AATACTGATGCCATGTCCCAGACATGGTCTTACACTGGCT-TACATAACAAT-ACTGATACCATG
1 AATACTGACGCCATGTCCCA-ACATGGTCTTACACTGGCTCT-CATAACAATGAC-GATGCCATG
*
28232811 TTTCAAACATGGTCTTACATTGGCTCACATATC
63 TTCCAAACATGGTCTTACATTGGCTCACATATC
* * *
28232844 AAGGT-C-GACGCCATGTCCCAACATGGTCTTACACTAGCTCTCACAACAATGTCGATGCCATGT
1 AA--TACTGACGCCATGTCCCAACATGGTCTTACACTGGCTCTCATAACAATGACGATGCCATGT
28232907 TCCAAACATGGTCTTACATTGGCTCACATAT
64 TCCAAACATGGTCTTACATTGGCTCACATAT
28232938 AACCCTAATA
Statistics
Matches: 164, Mismatches: 19, Indels: 16
0.82 0.10 0.08
Matches are distributed among these distances:
95 66 0.40
96 54 0.33
97 43 0.26
98 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.28
Consensus pattern (95 bp):
AATACTGACGCCATGTCCCAACATGGTCTTACACTGGCTCTCATAACAATGACGATGCCATGTTC
CAAACATGGTCTTACATTGGCTCACATATC
Found at i:28233296 original size:30 final size:28
Alignment explanation
Indices: 28233262--28233326 Score: 69
Period size: 30 Copynumber: 2.2 Consensus size: 28
28233252 CTACTTTGAC
28233262 AAAATGACCG-TTTTGCCCTTAGACTTTCAT
1 AAAATGA-CGATTTTGCCCTTAGAC--TCAT
* * *
28233292 AAAATTATGATTTTGCCCTTAGGCTCAT
1 AAAATGACGATTTTGCCCTTAGACTCAT
28233320 AAAATGA
1 AAAATGA
28233327 TTTTCATTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
28 10 0.33
29 1 0.03
30 19 0.63
ACGTcount: A:0.32, C:0.18, G:0.14, T:0.35
Consensus pattern (28 bp):
AAAATGACGATTTTGCCCTTAGACTCAT
Found at i:28238655 original size:18 final size:19
Alignment explanation
Indices: 28238632--28238668 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
28238622 AAATTTTAAA
*
28238632 AATTAAATTTAT-TATAAT
1 AATTAAAATTATGTATAAT
28238650 AATTAAAATTATGTATAAT
1 AATTAAAATTATGTATAAT
28238669 TGATAAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 11 0.65
19 6 0.35
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (19 bp):
AATTAAAATTATGTATAAT
Found at i:28246841 original size:47 final size:47
Alignment explanation
Indices: 28246776--28246938 Score: 190
Period size: 47 Copynumber: 3.5 Consensus size: 47
28246766 ATCCATAAGT
28246776 GAACTCAGACTCAACTCAACGAGCTCGGATGTCTAGTTACATCTCAC
1 GAACTCAGACTCAACTCAACGAGCTCGGATGTCTAGTTACATCTCAC
* * * * * *
28246823 GAACTCGGACTCAACTCAACGAGTTCGGACGT-TCG---CATCTATAAGT
1 GAACTCAGACTCAACTCAACGAGCTCGGATGTCTAGTTACATC--TCA-C
* *
28246869 GAACTCAAACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCAC
1 GAACTCAGACTCAACTCAACGAGCTCGGATGTCTAGTTACATCTCAC
*
28246916 GAACTCGGACTCAACTCAACGAG
1 GAACTCAGACTCAACTCAACGAG
28246939 TTCGAATGCC
Statistics
Matches: 93, Mismatches: 16, Indels: 14
0.76 0.13 0.11
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 29 0.31
47 52 0.56
48 2 0.02
50 4 0.04
ACGTcount: A:0.31, C:0.29, G:0.18, T:0.21
Consensus pattern (47 bp):
GAACTCAGACTCAACTCAACGAGCTCGGATGTCTAGTTACATCTCAC
Found at i:28246841 original size:93 final size:93
Alignment explanation
Indices: 28246729--28246942 Score: 367
Period size: 93 Copynumber: 2.3 Consensus size: 93
28246719 CGCCCATAAG
* *
28246729 CGAACTCGGACTCAACTCAACGAGCTT-GGGCGTTCCCATCCATAAGTGAACTCAGACTCAACTC
1 CGAACTCGGACTCAACTCAACGAG-TTCGGACGTTCCCATCCATAAGTGAACTCAAACTCAACTC
*
28246793 AACGAGCTCGGATGTCTAGTTACATCTCA
65 AACGAGCTCGGATGCCTAGTTACATCTCA
* *
28246822 CGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCATCTATAAGTGAACTCAAACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGTTCGGACGTTCCCATCCATAAGTGAACTCAAACTCAACTCA
28246887 ACGAGCTCGGATGCCTAGTTACATCTCA
66 ACGAGCTCGGATGCCTAGTTACATCTCA
28246915 CGAACTCGGACTCAACTCAACGAGTTCG
1 CGAACTCGGACTCAACTCAACGAGTTCG
28246943 AATGCCCAAA
Statistics
Matches: 115, Mismatches: 5, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
92 2 0.02
93 113 0.98
ACGTcount: A:0.29, C:0.30, G:0.19, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGTTCGGACGTTCCCATCCATAAGTGAACTCAAACTCAACTCA
ACGAGCTCGGATGCCTAGTTACATCTCA
Found at i:28246897 original size:46 final size:45
Alignment explanation
Indices: 28246723--28246897 Score: 174
Period size: 46 Copynumber: 3.8 Consensus size: 45
28246713 GTAACCCGCC
* * * *
28246723 CATAAGCGAACTCGGACTCAACTCAACGAGCTTGGGCGTTCCCAT
1 CATAAGCGAACTCAGACTCAACTCAACGAGCTCGGACGTTCGCAT
* * *
28246768 CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGGATGTCTAGTTACAT
1 -CATAAGCGAACTCAGACTCAACTCAACGAGCTCGGACGT-TCG---CAT
* * *
28246818 C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCAT
1 CATAAGCGAACTCAGACTCAACTCAACGAGCTCGGACGTTCGCAT
* *
28246861 CTATAAGTGAACTCAAACTCAACTCAACGAGCTCGGA
1 C-ATAAGCGAACTCAGACTCAACTCAACGAGCTCGGA
28246898 TGCCTAGTTA
Statistics
Matches: 104, Mismatches: 18, Indels: 14
0.76 0.13 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 62 0.60
47 30 0.29
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.21
Consensus pattern (45 bp):
CATAAGCGAACTCAGACTCAACTCAACGAGCTCGGACGTTCGCAT
Found at i:28251908 original size:39 final size:39
Alignment explanation
Indices: 28251864--28252147 Score: 453
Period size: 39 Copynumber: 7.3 Consensus size: 39
28251854 ATGCAAGACA
*
28251864 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
1 CTGGAAATATATCCGGGCTAAAGTCCCGCAGGCTTCGTG
*
28251903 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
1 CTGGAAATATATCCGGGCTAAAGTCCCGCAGGCTTCGTG
* *
28251942 CTGGAAATATATCCGGGCCAAAGTCCCACAGGCTTCGTG
1 CTGGAAATATATCCGGGCTAAAGTCCCGCAGGCTTCGTG
* *
28251981 CTGGAAATGTATCCGGGCTAAAGTCCCGCAAGCTTCGTG
1 CTGGAAATATATCCGGGCTAAAGTCCCGCAGGCTTCGTG
* *
28252020 CTGGAAATATATCCGGGCCAAAGTTCCGCAGGCTTCGTG
1 CTGGAAATATATCCGGGCTAAAGTCCCGCAGGCTTCGTG
*
28252059 CTGGAAATATATCCGGGCCAAAGTCCCGCAGGCTTCGTG
1 CTGGAAATATATCCGGGCTAAAGTCCCGCAGGCTTCGTG
* *
28252098 CTGGAAATATATCCGGGTTAAAGTCCCGCAGGCTTTGTG
1 CTGGAAATATATCCGGGCTAAAGTCCCGCAGGCTTCGTG
28252137 CT-GATAATATA
1 CTGGA-AATATA
28252148 ATTTCGGGTT
Statistics
Matches: 229, Mismatches: 15, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
38 2 0.01
39 227 0.99
ACGTcount: A:0.24, C:0.25, G:0.28, T:0.24
Consensus pattern (39 bp):
CTGGAAATATATCCGGGCTAAAGTCCCGCAGGCTTCGTG
Found at i:28254466 original size:40 final size:40
Alignment explanation
Indices: 28254369--28254599 Score: 304
Period size: 40 Copynumber: 5.8 Consensus size: 40
28254359 TGGATGAAAA
* ** * *
28254369 CCGGGCTAAGTCCCGAAGGCATCTGCACTAGTGACT-AAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
* * *
28254408 CCAGGCTAAGTCCCGAAGGCATCTGTGCGAGTTACTAAAC
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
* *
28254448 CCGGGCTAAGTCCCGAAGGCATTTGTGAGAATTACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
28254488 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
* * *
28254528 CCGGGCTAAGTCCCGAAGGCAATTGTGTGAGTTACTCTAA-
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AAAT
* *
28254568 CCGGGCTATGTCCCGAAGGCATTTGAGCGAGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
28254600 AGTTATATTC
Statistics
Matches: 170, Mismatches: 20, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
39 31 0.18
40 137 0.81
41 2 0.01
ACGTcount: A:0.26, C:0.24, G:0.27, T:0.23
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
Found at i:28260532 original size:45 final size:45
Alignment explanation
Indices: 28260450--28260653 Score: 270
Period size: 45 Copynumber: 4.6 Consensus size: 45
28260440 CCGACATTTT
* * *
28260450 GCCTGCTAAGCTCGAA-GCCCG-ATA-TCATTTCATCGGCATTATA
1 GCCTGCTAGGCTCAAAGGCCCGAATAGT-ATTTCACCGGCATTATA
*
28260493 GCCTGCTAGGCTCAAAGGCCCGAATAGTATTTCACCGGCATTGTA
1 GCCTGCTAGGCTCAAAGGCCCGAATAGTATTTCACCGGCATTATA
* *
28260538 GCCTGCTAGGCTCAAAGGCCCGAATAGTATTTCACCGGTATTGTA
1 GCCTGCTAGGCTCAAAGGCCCGAATAGTATTTCACCGGCATTATA
* * * *
28260583 GCCTGCTAGGCTCAAAGGCCCAAATAGTATCTCACCAGCATCATA
1 GCCTGCTAGGCTCAAAGGCCCGAATAGTATTTCACCGGCATTATA
* *
28260628 GCCTGATAGGCTTAAAGGCCCGAATA
1 GCCTGCTAGGCTCAAAGGCCCGAATA
28260654 TTACTGTACG
Statistics
Matches: 144, Mismatches: 14, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
43 14 0.10
44 5 0.03
45 124 0.86
46 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (45 bp):
GCCTGCTAGGCTCAAAGGCCCGAATAGTATTTCACCGGCATTATA
Found at i:28263309 original size:47 final size:47
Alignment explanation
Indices: 28263238--28263785 Score: 925
Period size: 47 Copynumber: 11.6 Consensus size: 47
28263228 CCCTTCGGGA
* * * * * * *
28263238 CTTATCAAATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
28263285 CCTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
28263332 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
28263379 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
28263426 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
28263473 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
28263522 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
28263569 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
28263616 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
28263663 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
28263712 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
28263759 CTTATCACATATATACACTTTCACATT
1 CTTATCACATATATACACTTTCACATT
28263786 TATTCAAATA
Statistics
Matches: 474, Mismatches: 23, Indels: 8
0.94 0.05 0.02
Matches are distributed among these distances:
47 384 0.81
49 90 0.19
ACGTcount: A:0.30, C:0.29, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:28263559 original size:190 final size:190
Alignment explanation
Indices: 28263238--28263785 Score: 983
Period size: 190 Copynumber: 2.9 Consensus size: 190
28263228 CCCTTCGGGA
* * * * * * * *
28263238 CTTATCAAATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTATCAC--ATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
* *
28263301 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
66 ACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACA
28263366 TCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
131 TCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
28263426 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
28263491 ACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACA
66 ACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACA
*
28263556 TCGGCCATTAGACCTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
131 TCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
28263616 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
28263681 ACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACA
66 ACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACA
28263746 TCGGCCATTAGGCCTTATCACATATATACACTTTCACATT
131 TCGGCCATTAGGCCTTATCACATATATACACTTTCACATT
28263786 TATTCAAATA
Statistics
Matches: 346, Mismatches: 12, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
188 47 0.14
190 299 0.86
ACGTcount: A:0.30, C:0.29, G:0.08, T:0.33
Consensus pattern (190 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
ACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACA
TCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
Found at i:28268011 original size:48 final size:48
Alignment explanation
Indices: 28267953--28268506 Score: 892
Period size: 48 Copynumber: 11.5 Consensus size: 48
28267943 TATATATGTA
* * * *
28267953 TGGTGAAGCCGAATGGCTAATGTGAAATATATGTGTGATATGTGTATG
1 TGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATG
*
28268001 TGGTAAAGCCGAATGGCGAATGTGAAATATATATGAGATATGTATATG
1 TGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATG
* *
28268049 TGGTAAAGCCGAATGGCTAATGTGAAATATATGTGTGATATGTATATG
1 TGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATG
*
28268097 TGGTAAAGCCGAATGGCTAATGTGAAATATATCTGAGATATGTATATG
1 TGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATG
* *
28268145 TGGTAAAGCCAAATGGCTAATGTGAAATATGTATGAGATATGTATATG
1 TGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATG
* * *
28268193 TGGTAAAGCCGAATGGATAATGTGAAATATATGTGTGATATGTATATG
1 TGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATG
* *
28268241 TGGTAAAGCCGAATGGCGAATGTGAAATATGTATGAGATATGTATATG
1 TGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATG
* * *
28268289 TGGTAAAGCCGAATGGATAATGTGAAATATATGTGTGATATGTATATG
1 TGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATG
* * *
28268337 TGGTAAAGCCGAAAGGCGAATGTGAAATATGTATGAGATATGTATATG
1 TGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATG
28268385 TGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATG
1 TGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATG
* * *
28268433 TGGTAAAGCCGAATGGCGAATGTAAAATATGTATGAGATATGTATATG
1 TGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATG
28268481 TGGTAAAGCCGAATGGCTAATGTGAA
1 TGGTAAAGCCGAATGGCTAATGTGAA
28268507 TGTTGTAACA
Statistics
Matches: 464, Mismatches: 42, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
48 464 1.00
ACGTcount: A:0.36, C:0.06, G:0.27, T:0.31
Consensus pattern (48 bp):
TGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATG
Found at i:28275393 original size:48 final size:48
Alignment explanation
Indices: 28275322--28275418 Score: 194
Period size: 48 Copynumber: 2.0 Consensus size: 48
28275312 TCCCCAACAT
28275322 ATCTACTAAGTCTGACAAACTTTCGCTCGTAATCAGTAACTGTCATAG
1 ATCTACTAAGTCTGACAAACTTTCGCTCGTAATCAGTAACTGTCATAG
28275370 ATCTACTAAGTCTGACAAACTTTCGCTCGTAATCAGTAACTGTCATAG
1 ATCTACTAAGTCTGACAAACTTTCGCTCGTAATCAGTAACTGTCATAG
28275418 A
1 A
28275419 ACCCTATTTG
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 49 1.00
ACGTcount: A:0.32, C:0.23, G:0.14, T:0.31
Consensus pattern (48 bp):
ATCTACTAAGTCTGACAAACTTTCGCTCGTAATCAGTAACTGTCATAG
Found at i:28277813 original size:46 final size:46
Alignment explanation
Indices: 28277763--28277935 Score: 166
Period size: 46 Copynumber: 3.7 Consensus size: 46
28277753 TTGGGCATCC
*
28277763 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGAAAATGTCT
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGAAAACGTCT
*** * *** ** *
28277809 GAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAGGCATCT
1 GAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATGGATGAAAACGTCT
* ** * *
28277856 GAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGAAAACGTCT
* **
28277902 GAGCTCGTTGAGTTGAGTTTGAGTTCACTTATGG
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
28277936 GTGGGTTACA
Statistics
Matches: 99, Mismatches: 27, Indels: 2
0.77 0.21 0.02
Matches are distributed among these distances:
46 65 0.66
47 34 0.34
ACGTcount: A:0.23, C:0.17, G:0.29, T:0.31
Consensus pattern (46 bp):
GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGAAAACGTCT
Found at i:28279822 original size:45 final size:45
Alignment explanation
Indices: 28279731--28279897 Score: 243
Period size: 45 Copynumber: 3.8 Consensus size: 45
28279721 TTCATCCACT
* * *
28279731 GGCATT-TCGCCTGCTAGGCTCGAA-GTCC-AATA-TCATTTCACC
1 GGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGT-ATTTCACC
28279773 GGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATTTCACC
1 GGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATTTCACC
* *
28279818 GGCATTGTAGCCTGCTAGGCTCAAAGGCCCGAATAGTATCTCACC
1 GGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATTTCACC
*
28279863 GGCATCATAGCCTGCTAGGCTCAAAGGCCCGAATA
1 GGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATA
28279898 TTACTGTACG
Statistics
Matches: 114, Mismatches: 7, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
42 6 0.05
43 16 0.14
44 3 0.03
45 88 0.77
46 1 0.01
ACGTcount: A:0.25, C:0.29, G:0.23, T:0.23
Consensus pattern (45 bp):
GGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATTTCACC
Found at i:28283892 original size:23 final size:22
Alignment explanation
Indices: 28283865--28283937 Score: 67
Period size: 23 Copynumber: 3.2 Consensus size: 22
28283855 TGGTTCGATC
28283865 CAAATCTATTTTATTCGAATAAT
1 CAAAT-TATTTTATTCGAATAAT
* ** * *
28283888 CAAA-TATTTTCTAAGAGAAAAC
1 CAAATTATTTTATTCGA-ATAAT
28283910 CAAATATATTTTATTCGAATAAT
1 CAAAT-TATTTTATTCGAATAAT
28283933 CAAAT
1 CAAAT
28283938 AAACTCAGTT
Statistics
Matches: 37, Mismatches: 10, Indels: 6
0.70 0.19 0.11
Matches are distributed among these distances:
21 9 0.24
22 7 0.19
23 12 0.32
24 9 0.24
ACGTcount: A:0.45, C:0.12, G:0.05, T:0.37
Consensus pattern (22 bp):
CAAATTATTTTATTCGAATAAT
Found at i:28285886 original size:29 final size:29
Alignment explanation
Indices: 28285854--28285924 Score: 124
Period size: 29 Copynumber: 2.4 Consensus size: 29
28285844 CCCATGTGCC
28285854 AAGCCGTGTGTCACACACGGTCAAGACAT
1 AAGCCGTGTGTCACACACGGTCAAGACAT
28285883 AAGCCGTGTGTCACACACGGTCAAGACAT
1 AAGCCGTGTGTCACACACGGTCAAGACAT
*
28285912 ACGCCCGTGTGTC
1 AAG-CCGTGTGTC
28285925 TACCCATGTG
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
29 31 0.77
30 9 0.22
ACGTcount: A:0.27, C:0.30, G:0.25, T:0.18
Consensus pattern (29 bp):
AAGCCGTGTGTCACACACGGTCAAGACAT
Found at i:28287279 original size:18 final size:18
Alignment explanation
Indices: 28287252--28287288 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
28287242 TAAATATCAT
* *
28287252 AAACATATACCACATTCA
1 AAACAAATACAACATTCA
28287270 AAACAAATACAACATTCA
1 AAACAAATACAACATTCA
28287288 A
1 A
28287289 TTGAAACATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.57, C:0.24, G:0.00, T:0.19
Consensus pattern (18 bp):
AAACAAATACAACATTCA
Found at i:28292980 original size:22 final size:22
Alignment explanation
Indices: 28292955--28293026 Score: 74
Period size: 22 Copynumber: 3.3 Consensus size: 22
28292945 CTAAGTCAAT
*
28292955 AGGACGGCTCAACGCTGTAGAC
1 AGGACGACTCAACGCTGTAGAC
* *
28292977 AGGATGACTCAACGCAGTAGAC
1 AGGACGACTCAACGCTGTAGAC
* * *
28292999 AAGAAGACTCAACGCCT-TAGAT
1 AGGACGACTCAACG-CTGTAGAC
28293021 AGGACG
1 AGGACG
28293027 GCTAAAGGCT
Statistics
Matches: 40, Mismatches: 9, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
22 39 0.98
23 1 0.03
ACGTcount: A:0.35, C:0.24, G:0.28, T:0.14
Consensus pattern (22 bp):
AGGACGACTCAACGCTGTAGAC
Found at i:28293315 original size:28 final size:29
Alignment explanation
Indices: 28293270--28293334 Score: 69
Period size: 28 Copynumber: 2.2 Consensus size: 29
28293260 AAGGGCAAAA
* *
28293270 TCATTATTCTACCATATAGGGGCATTACGG
1 TCATT-TTCTACCATATAAGGACATTACGG
* *
28293300 TCATTTT-TACCCTATAAGGACATTATGG
1 TCATTTTCTACCATATAAGGACATTACGG
*
28293328 TAATTTT
1 TCATTTT
28293335 ACAAATCGGG
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
28 23 0.77
29 2 0.07
30 5 0.17
ACGTcount: A:0.28, C:0.17, G:0.15, T:0.40
Consensus pattern (29 bp):
TCATTTTCTACCATATAAGGACATTACGG
Found at i:28296478 original size:22 final size:22
Alignment explanation
Indices: 28296453--28296511 Score: 66
Period size: 22 Copynumber: 2.7 Consensus size: 22
28296443 CAACAGGACG
28296453 ACTCAACGCCGTAGACAAGACT-
1 ACTCAACGCCGTAGACAAGA-TA
** *
28296475 ACTCAACGCTTTAGACAGGATA
1 ACTCAACGCCGTAGACAAGATA
*
28296497 ACTCAACACCGTAGA
1 ACTCAACGCCGTAGA
28296512 TAGGACGGTT
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
21 1 0.03
22 29 0.97
ACGTcount: A:0.37, C:0.29, G:0.17, T:0.17
Consensus pattern (22 bp):
ACTCAACGCCGTAGACAAGATA
Found at i:28303802 original size:47 final size:47
Alignment explanation
Indices: 28303670--28304240 Score: 975
Period size: 47 Copynumber: 12.2 Consensus size: 47
28303660 AGCCAAGATG
28303670 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
28303717 TGTGATAAGGCCTAAT-GCCGATGTGATGAATGTGAAAGTGTATATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
*
28303763 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATG
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
*
28303810 TGTGATAAGGCCTAAT-GCCGATGTGATGAATGTGAAAGTGTATATG
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
28303856 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
*
28303903 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATG
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
*
28303950 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATG
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
* *
28303997 TGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATG
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
*
28304044 TGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
*
28304091 TGTAATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
28304138 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
* * * * * * * * *
28304185 TGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGCATAAA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
28304232 TGTGATAAG
1 TGTGATAAG
28304241 TCCCGAAGGG
Statistics
Matches: 503, Mismatches: 19, Indels: 4
0.96 0.04 0.01
Matches are distributed among these distances:
46 92 0.18
47 411 0.82
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
Found at i:28304415 original size:37 final size:37
Alignment explanation
Indices: 28304359--28304437 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
28304349 CCGAGCTCTA
* *
28304359 AAGACCCGATGACTACGTGTGG-GAATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAG-ATTATGTCCGGGT
*
28304396 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
28304433 AAGAC
1 AAGAC
28304438 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 37 0.97
38 1 0.03
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:28307743 original size:27 final size:27
Alignment explanation
Indices: 28307710--28308429 Score: 408
Period size: 27 Copynumber: 26.7 Consensus size: 27
28307700 CCTCAAATTG
*
28307710 TAAAATTACCAAAGTACCCTCGATTTA
1 TAAAATTACCAAATTACCCTCGATTTA
* ***
28307737 TAGAATTACCGTTTTACCCTCGATTTA
1 TAAAATTACCAAATTACCCTCGATTTA
* ***
28307764 TAGAATTACCGTTTTACCCTCGATTTA
1 TAAAATTACCAAATTACCCTCGATTTA
* * ** *
28307791 CAGAATTACCATTTTACCTTCGATTTA
1 TAAAATTACCAAATTACCCTCGATTTA
* * **
28307818 TAGAATTATCATTTTACCCTCGATTTA
1 TAAAATTACCAAATTACCCTCGATTTA
* ***
28307845 TAGAATTACCGTTTTACCCTCGATTTA
1 TAAAATTACCAAATTACCCTCGATTTA
* ***
28307872 CAAAATTACCGTTTTACCCTCGATTTA
1 TAAAATTACCAAATTACCCTCGATTTA
* * *
28307899 CAGAATTACC-ATTTACCCTCGATTTA
1 TAAAATTACCAAATTACCCTCGATTTA
* **
28307925 TAGAATTACCATTTTACCCTCGATTTA
1 TAAAATTACCAAATTACCCTCGATTTA
* *****
28307952 TAGAATTAATGTTTTACCCTCGATTTA
1 TAAAATTACCAAATTACCCTCGATTTA
* **
28307979 CAAAATTACCATTTTACCCTCGATTTA
1 TAAAATTACCAAATTACCCTCGATTTA
* ** ** *
28308006 TAGAATTACCATTTTACCCTTAACTTA
1 TAAAATTACCAAATTACCCTCGATTTA
* * ***
28308033 CAGAATTACCGTTTTACCCTCGATTTA
1 TAAAATTACCAAATTACCCTCGATTTA
* ***
28308060 CAAAATTACCGTTTTACCCTCGATTTA
1 TAAAATTACCAAATTACCCTCGATTTA
* * * * *
28308087 CAAAATTACTAAAATACCATTGATTTA
1 TAAAATTACCAAATTACCCTCGATTTA
* * *
28308114 CAAAATTACCAAAATACCCTCGA-TCA
1 TAAAATTACCAAATTACCCTCGATTTA
* * * * *
28308140 GTAAAATAAACAAAATACCC-CTGGTTTG
1 -TAAAATTACCAAATTACCCTC-GATTTA
* * * *
28308168 TAAAATTACTAAAATACCC-CTGGTTTG
1 TAAAATTACCAAATTACCCTC-GATTTA
* *
28308195 TAAAATTACCAAATTACCC-CTGGTTTG
1 TAAAATTACCAAATTACCCTC-GATTTA
* * * * *
28308222 TAAAATTACTAAAATACCCTTGGTTTG
1 TAAAATTACCAAATTACCCTCGATTTA
* * * * *
28308249 TAAAATTACTAAAATACCTTTGGTTTA
1 TAAAATTACCAAATTACCCTCGATTTA
* * *
28308276 TAAAATTACCAAAATACCC-CTGGTTTG
1 TAAAATTACCAAATTACCCTC-GATTTA
* * *
28308303 TAAAATTACCAAAATACCCTTGGTTTA
1 TAAAATTACCAAATTACCCTCGATTTA
* * * * *
28308330 CAAAATTACCAAAATACCCTTGGTTTG
1 TAAAATTACCAAATTACCCTCGATTTA
* * * *
28308357 TAAAATTACCAAAATACCCTTGGTTTG
1 TAAAATTACCAAATTACCCTCGATTTA
* * *
28308384 TAAAATTACCAAAATACCCTTGGTTTA
1 TAAAATTACCAAATTACCCTCGATTTA
* *
28308411 CAAAATTACCAAAATACCC
1 TAAAATTACCAAATTACCC
28308430 CTGATTTGTG
Statistics
Matches: 610, Mismatches: 76, Indels: 14
0.87 0.11 0.02
Matches are distributed among these distances:
26 27 0.04
27 582 0.95
28 1 0.00
ACGTcount: A:0.35, C:0.21, G:0.08, T:0.35
Consensus pattern (27 bp):
TAAAATTACCAAATTACCCTCGATTTA
Found at i:28307757 original size:54 final size:54
Alignment explanation
Indices: 28307724--28308095 Score: 521
Period size: 54 Copynumber: 6.9 Consensus size: 54
28307714 ATTACCAAAG
*
28307724 TACCCTCGATTTATAGAATTACCGTTTTACCCTCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTATAGAATTACCGTTTTACCCTCGATTTATAGAATTACCATTT
* * * *
28307778 TACCCTCGATTTACAGAATTACCATTTTACCTTCGATTTATAGAATTATCATTT
1 TACCCTCGATTTATAGAATTACCGTTTTACCCTCGATTTATAGAATTACCATTT
* * *
28307832 TACCCTCGATTTATAGAATTACCGTTTTACCCTCGATTTACAAAATTACCGTTT
1 TACCCTCGATTTATAGAATTACCGTTTTACCCTCGATTTATAGAATTACCATTT
* *
28307886 TACCCTCGATTTACAGAATTACC-ATTTACCCTCGATTTATAGAATTACCATTT
1 TACCCTCGATTTATAGAATTACCGTTTTACCCTCGATTTATAGAATTACCATTT
** * *
28307939 TACCCTCGATTTATAGAATTAATGTTTTACCCTCGATTTACAAAATTACCATTT
1 TACCCTCGATTTATAGAATTACCGTTTTACCCTCGATTTATAGAATTACCATTT
* ** * * *
28307993 TACCCTCGATTTATAGAATTACCATTTTACCCTTAACTTACAGAATTACCGTTT
1 TACCCTCGATTTATAGAATTACCGTTTTACCCTCGATTTATAGAATTACCATTT
* * * *
28308047 TACCCTCGATTTACAAAATTACCGTTTTACCCTCGATTTACAAAATTAC
1 TACCCTCGATTTATAGAATTACCGTTTTACCCTCGATTTATAGAATTAC
28308096 TAAAATACCA
Statistics
Matches: 279, Mismatches: 38, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
53 46 0.16
54 233 0.84
ACGTcount: A:0.30, C:0.23, G:0.08, T:0.39
Consensus pattern (54 bp):
TACCCTCGATTTATAGAATTACCGTTTTACCCTCGATTTATAGAATTACCATTT
Found at i:28308123 original size:81 final size:81
Alignment explanation
Indices: 28307724--28308095 Score: 557
Period size: 81 Copynumber: 4.6 Consensus size: 81
28307714 ATTACCAAAG
* * *
28307724 TACCCTCGATTTATAGAATTACCGTTTTACCCTCGATTTATAGAATTACCGTTTTACCCTCGATT
1 TACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTATAGAATTACCATTTTACCCTCGATT
*
28307789 TACAGAATTACCATTT
66 TACAGAATTACCGTTT
* * * *
28307805 TACCTTCGATTTATAGAATTATCATTTTACCCTCGATTTATAGAATTACCGTTTTACCCTCGATT
1 TACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTATAGAATTACCATTTTACCCTCGATT
*
28307870 TACAAAATTACCGTTT
66 TACAGAATTACCGTTT
28307886 TACCCTCGATTTACAGAATTACCA-TTTACCCTCGATTTATAGAATTACCATTTTACCCTCGATT
1 TACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTATAGAATTACCATTTTACCCTCGATT
* **
28307950 TATAGAATTAATGTTT
66 TACAGAATTACCGTTT
* ** *
28307966 TACCCTCGATTTACAAAATTACCATTTTACCCTCGATTTATAGAATTACCATTTTACCCTTAACT
1 TACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTATAGAATTACCATTTTACCCTCGATT
28308031 TACAGAATTACCGTTT
66 TACAGAATTACCGTTT
* * * *
28308047 TACCCTCGATTTACAAAATTACCGTTTTACCCTCGATTTACAAAATTAC
1 TACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTATAGAATTAC
28308096 TAAAATACCA
Statistics
Matches: 267, Mismatches: 23, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
80 74 0.28
81 193 0.72
ACGTcount: A:0.30, C:0.23, G:0.08, T:0.39
Consensus pattern (81 bp):
TACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTATAGAATTACCATTTTACCCTCGATT
TACAGAATTACCGTTT
Found at i:28308443 original size:27 final size:27
Alignment explanation
Indices: 28308088--28308459 Score: 465
Period size: 27 Copynumber: 13.8 Consensus size: 27
28308078 CTCGATTTAC
* * * **
28308088 AAAATTACTAAAATACCATTGATTTAC
1 AAAATTACCAAAATACCCTTGGTTTGT
* * **
28308115 AAAATTACCAAAATACCCTCGATCAGT
1 AAAATTACCAAAATACCCTTGGTTTGT
* * *
28308142 AAAATAAACAAAATACCCCTGGTTTGT
1 AAAATTACCAAAATACCCTTGGTTTGT
* *
28308169 AAAATTACTAAAATACCCCTGGTTTGT
1 AAAATTACCAAAATACCCTTGGTTTGT
* *
28308196 AAAATTACCAAATTACCCCTGGTTTGT
1 AAAATTACCAAAATACCCTTGGTTTGT
*
28308223 AAAATTACTAAAATACCCTTGGTTTGT
1 AAAATTACCAAAATACCCTTGGTTTGT
* * *
28308250 AAAATTACTAAAATACCTTTGGTTTAT
1 AAAATTACCAAAATACCCTTGGTTTGT
*
28308277 AAAATTACCAAAATACCCCTGGTTTGT
1 AAAATTACCAAAATACCCTTGGTTTGT
**
28308304 AAAATTACCAAAATACCCTTGGTTTAC
1 AAAATTACCAAAATACCCTTGGTTTGT
28308331 AAAATTACCAAAATACCCTTGGTTTGT
1 AAAATTACCAAAATACCCTTGGTTTGT
28308358 AAAATTACCAAAATACCCTTGGTTTGT
1 AAAATTACCAAAATACCCTTGGTTTGT
**
28308385 AAAATTACCAAAATACCCTTGGTTTAC
1 AAAATTACCAAAATACCCTTGGTTTGT
* *
28308412 AAAATTACCAAAATACCCCTGATTTGT
1 AAAATTACCAAAATACCCTTGGTTTGT
* ***
28308439 GAAATTATTGAAATACCCTTG
1 AAAATTACCAAAATACCCTTG
28308460 TAGGGTAGAA
Statistics
Matches: 301, Mismatches: 44, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 301 1.00
ACGTcount: A:0.40, C:0.19, G:0.09, T:0.32
Consensus pattern (27 bp):
AAAATTACCAAAATACCCTTGGTTTGT
Found at i:28308478 original size:27 final size:28
Alignment explanation
Indices: 28308439--28308496 Score: 91
Period size: 27 Copynumber: 2.1 Consensus size: 28
28308429 CCTGATTTGT
* *
28308439 GAAATTATTGAAATACCCTTGTAGGGTA
1 GAAATTATCGAAATACCCCTGTAGGGTA
28308467 GAAA-TATCGAAATACCCCTGTAGGGTA
1 GAAATTATCGAAATACCCCTGTAGGGTA
28308494 GAA
1 GAA
28308497 TTACCATTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
27 24 0.86
28 4 0.14
ACGTcount: A:0.38, C:0.14, G:0.22, T:0.26
Consensus pattern (28 bp):
GAAATTATCGAAATACCCCTGTAGGGTA
Found at i:28308740 original size:25 final size:25
Alignment explanation
Indices: 28308706--28308775 Score: 122
Period size: 25 Copynumber: 2.8 Consensus size: 25
28308696 AGGAAGTGCT
*
28308706 AAAAGGGCTTTGCCCTAGTTTACCG
1 AAAAGGGCTTTGCCCTAGTTTACCA
28308731 AAAAGGGCTTTGCCCTAGTTTACCA
1 AAAAGGGCTTTGCCCTAGTTTACCA
*
28308756 AAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCTAGTT
28308776 ATTAAAAGAG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 43 1.00
ACGTcount: A:0.26, C:0.24, G:0.23, T:0.27
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCTAGTTTACCA
Found at i:28310919 original size:49 final size:49
Alignment explanation
Indices: 28310847--28310943 Score: 194
Period size: 49 Copynumber: 2.0 Consensus size: 49
28310837 GGCTAGGTGA
28310847 ATCTCATATCTGTGGCTAGATTTGGGCTAAAAGGGCCACACGAGCGTGG
1 ATCTCATATCTGTGGCTAGATTTGGGCTAAAAGGGCCACACGAGCGTGG
28310896 ATCTCATATCTGTGGCTAGATTTGGGCTAAAAGGGCCACACGAGCGTG
1 ATCTCATATCTGTGGCTAGATTTGGGCTAAAAGGGCCACACGAGCGTG
28310944 TGGCCGAGAA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 48 1.00
ACGTcount: A:0.25, C:0.21, G:0.30, T:0.25
Consensus pattern (49 bp):
ATCTCATATCTGTGGCTAGATTTGGGCTAAAAGGGCCACACGAGCGTGG
Found at i:28311064 original size:27 final size:27
Alignment explanation
Indices: 28311047--28311475 Score: 444
Period size: 27 Copynumber: 15.9 Consensus size: 27
28311037 ATTACTAAAG
* **
28311047 TACCCTCGATTTACAAAATTACTGTTT
1 TACCCTCGATTTATAAAATTACCATTT
* *
28311074 TACCCTCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTATAAAATTACCATTT
* *
28311101 TACCCTCGATTTACAGAATTACCATTT
1 TACCCTCGATTTATAAAATTACCATTT
*
28311128 TACCCTCGATTTATAGAATTACCATTT
1 TACCCTCGATTTATAAAATTACCATTT
* * * *
28311155 TACCCTCAATTTATAGAATTATCGTTT
1 TACCCTCGATTTATAAAATTACCATTT
* *
28311182 TACCCTCGATTTACAAAATTACTATTT
1 TACCCTCGATTTATAAAATTACCATTT
* ** * *
28311209 TACCTTTAATTTACAGAATTACCATTT
1 TACCCTCGATTTATAAAATTACCATTT
*
28311236 TACCCTCGATTTATAGAATTACCATTT
1 TACCCTCGATTTATAAAATTACCATTT
* * *
28311263 TACCCTCAATTTATAGAATTACTATTT
1 TACCCTCGATTTATAAAATTACCATTT
* * **
28311290 TACCCTCGATTTACAGAATTACTGTTT
1 TACCCTCGATTTATAAAATTACCATTT
* *
28311317 TACCTTCGATTTATAGAATTACCATTT
1 TACCCTCGATTTATAAAATTACCATTT
* * * * *
28311344 TACCCTCGACTTACAGAATAACTATTT
1 TACCCTCGATTTATAAAATTACCATTT
28311371 TACCCTCGATTTATAAAATTACCATTT
1 TACCCTCGATTTATAAAATTACCATTT
* * ***
28311398 TACCCTCGATTTACAAAATTACTAAAA
1 TACCCTCGATTTATAAAATTACCATTT
* * ***
28311425 TACCCTTGATTTACAAAATTACCAAAA
1 TACCCTCGATTTATAAAATTACCATTT
**
28311452 TACCCTCGATCAATAAAATTACCA
1 TACCCTCGATTTATAAAATTACCA
28311476 AAATACCCCT
Statistics
Matches: 348, Mismatches: 54, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 348 1.00
ACGTcount: A:0.33, C:0.22, G:0.06, T:0.39
Consensus pattern (27 bp):
TACCCTCGATTTATAAAATTACCATTT
Found at i:28311094 original size:54 final size:54
Alignment explanation
Indices: 28311047--28311448 Score: 498
Period size: 54 Copynumber: 7.4 Consensus size: 54
28311037 ATTACTAAAG
* ** * **
28311047 TACCCTCGATTTACAAAATTACTGTTTTACCCTCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTACAGAATTACTATTT
* *
28311101 TACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTATAGAATTACCATTT
1 TACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTACAGAATTACTATTT
* * * * *
28311155 TACCCTCAATTTATAGAATTATCGTTTTACCCTCGATTTACAAAATTACTATTT
1 TACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTACAGAATTACTATTT
* ** * *
28311209 TACCTTTAATTTACAGAATTACCATTTTACCCTCGATTTATAGAATTACCATTT
1 TACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTACAGAATTACTATTT
* * * *
28311263 TACCCTCAATTTATAGAATTACTATTTTACCCTCGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTACAGAATTACTATTT
* * * *
28311317 TACCTTCGATTTATAGAATTACCATTTTACCCTCGACTTACAGAATAACTATTT
1 TACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTACAGAATTACTATTT
* * * ***
28311371 TACCCTCGATTTATAAAATTACCATTTTACCCTCGATTTACAAAATTACTAAAA
1 TACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTACAGAATTACTATTT
* *
28311425 TACCCTTGATTTACAAAATTACCA
1 TACCCTCGATTTACAGAATTACCA
28311449 AAATACCCTC
Statistics
Matches: 306, Mismatches: 42, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
54 306 1.00
ACGTcount: A:0.32, C:0.22, G:0.06, T:0.40
Consensus pattern (54 bp):
TACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTACAGAATTACTATTT
Found at i:28311148 original size:81 final size:81
Alignment explanation
Indices: 28311047--28311446 Score: 530
Period size: 81 Copynumber: 4.9 Consensus size: 81
28311037 ATTACTAAAG
* ** *
28311047 TACCCTCGATTTACAAAATTACTGTTTTACCCTCGATTTATAGAATTACCGTTTTACCCTCGATT
1 TACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTATAGAATTACCATTTTACCCTCGATT
*
28311112 TACAGAATTACCATTT
66 TACAGAATTACTATTT
* * * *
28311128 TACCCTCGATTTATAGAATTACCATTTTACCCTCAATTTATAGAATTATCGTTTTACCCTCGATT
1 TACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTATAGAATTACCATTTTACCCTCGATT
*
28311193 TACAAAATTACTATTT
66 TACAGAATTACTATTT
* ** *
28311209 TACCTTTAATTTACAGAATTACCATTTTACCCTCGATTTATAGAATTACCATTTTACCCTCAATT
1 TACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTATAGAATTACCATTTTACCCTCGATT
*
28311274 TATAGAATTACTATTT
66 TACAGAATTACTATTT
** * *
28311290 TACCCTCGATTTACAGAATTACTGTTTTACCTTCGATTTATAGAATTACCATTTTACCCTCGACT
1 TACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTATAGAATTACCATTTTACCCTCGATT
*
28311355 TACAGAATAACTATTT
66 TACAGAATTACTATTT
* * * * * *** *
28311371 TACCCTCGATTTATAAAATTACCATTTTACCCTCGATTTACAAAATTACTAAAATACCCTTGATT
1 TACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTATAGAATTACCATTTTACCCTCGATT
*
28311436 TACAAAATTAC
66 TACAGAATTAC
28311447 CAAAATACCC
Statistics
Matches: 276, Mismatches: 43, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
81 276 1.00
ACGTcount: A:0.32, C:0.22, G:0.07, T:0.40
Consensus pattern (81 bp):
TACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTATAGAATTACCATTTTACCCTCGATT
TACAGAATTACTATTT
Found at i:28311456 original size:54 final size:54
Alignment explanation
Indices: 28311182--28311672 Score: 329
Period size: 54 Copynumber: 9.1 Consensus size: 54
28311172 ATTATCGTTT
*** * * * * ***
28311182 TACCCTCGATTTACAAAATTACTATTTTACCTTTAATTTACAGAATTACCATTT
1 TACCCTCGATTTACAAAATTACTAAAATACCCTTGATTTATAAAATTACCAAAA
* * * *** ** * * ***
28311236 TACCCTCGATTTATAGAATTACCATTTTACCCTCAATTTATAGAATTACTATTT
1 TACCCTCGATTTACAAAATTACTAAAATACCCTTGATTTATAAAATTACCAAAA
* **** * ***
28311290 TACCCTCGATTTACAGAATTACTGTTTTA-CCTTCGATTTATAGAATTACCATTT
1 TACCCTCGATTTACAAAATTACTAAAATACCCTT-GATTTATAAAATTACCAAAA
* * * *** * ***
28311344 TACCCTCGACTTACAGAATAACTATTTTACCCTCGATTTATAAAATTACCATTT
1 TACCCTCGATTTACAAAATTACTAAAATACCCTTGATTTATAAAATTACCAAAA
*
28311398 TACCCTCGATTTACAAAATTACTAAAATACCCTTGATTTACAAAATTACCAAAA
1 TACCCTCGATTTACAAAATTACTAAAATACCCTTGATTTATAAAATTACCAAAA
** * * * * * *
28311452 TACCCTCGATCAATAAAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAA
1 TACCCTCGATTTACAAAATTACTAAAATACCCTTGATTTATAAAATTACCAAAA
* * ** * *
28311506 TACCCTTGGTTTGTAAAATTACTAAAATACCTTTGGTTTATAAAATTACCAAAA
1 TACCCTCGATTTACAAAATTACTAAAATACCCTTGATTTATAAAATTACCAAAA
* ** * *
28311560 TACCC-CTGGTTTGTAAAATTACCAAAATACCCTTGATTTACAAAATTACCAAAA
1 TACCCTC-GATTTACAAAATTACTAAAATACCCTTGATTTATAAAATTACCAAAA
* * ** * * *
28311614 TACCCTTGGTTTGGAAAATTACCAAAATACCATTGGTTTATAAAATTACCAAAA
1 TACCCTCGATTTACAAAATTACTAAAATACCCTTGATTTATAAAATTACCAAAA
28311668 TACCC
1 TACCC
28311673 CTAATTTGTG
Statistics
Matches: 375, Mismatches: 58, Indels: 8
0.85 0.13 0.02
Matches are distributed among these distances:
53 3 0.01
54 369 0.98
55 3 0.01
ACGTcount: A:0.37, C:0.21, G:0.07, T:0.35
Consensus pattern (54 bp):
TACCCTCGATTTACAAAATTACTAAAATACCCTTGATTTATAAAATTACCAAAA
Found at i:28311456 original size:81 final size:81
Alignment explanation
Indices: 28311034--28311672 Score: 436
Period size: 81 Copynumber: 7.9 Consensus size: 81
28311024 CTTAAATTGT
* * ** * **
28311034 AAAATTACTAAAGTACCCTCGATTTACAAAATTACTGTTTTACCCTCGATTTATAGAATTACCGT
1 AAAATTACTAAATTACCCTCGATTTATAAAATTACCATTTTACCCTCGATTTATAAAATTACCAA
**
28311099 TTTACCCTCGATTTAC
66 AATACCCTCGATTTAC
* * ** * * * * **
28311115 AGAATTACCATTTTACCCTCGATTTATAGAATTACCATTTTACCCTCAATTTATAGAATTATCGT
1 AAAATTACTAAATTACCCTCGATTTATAAAATTACCATTTTACCCTCGATTTATAAAATTACCAA
**
28311180 TTTACCCTCGATTTAC
66 AATACCCTCGATTTAC
** * ** * * * *
28311196 AAAATTACTATTTTACCTTTAATTTACAGAATTACCATTTTACCCTCGATTTATAGAATTACCAT
1 AAAATTACTAAATTACCCTCGATTTATAAAATTACCATTTTACCCTCGATTTATAAAATTACCAA
** * *
28311261 TTTACCCTCAATTTAT
66 AATACCCTCGATTTAC
* ** * * ** * * *
28311277 AGAATTACTATTTTACCCTCGATTTACAGAATTACTGTTTTACCTTCGATTTATAGAATTACCAT
1 AAAATTACTAAATTACCCTCGATTTATAAAATTACCATTTTACCCTCGATTTATAAAATTACCAA
** *
28311342 TTTACCCTCGACTTAC
66 AATACCCTCGATTTAC
* * ** * *
28311358 AGAATAACTATTTTACCCTCGATTTATAAAATTACCATTTTACCCTCGATTTACAAAATTACTAA
1 AAAATTACTAAATTACCCTCGATTTATAAAATTACCATTTTACCCTCGATTTATAAAATTACCAA
*
28311423 AATACCCTTGATTTAC
66 AATACCCTCGATTTAC
* * ** *** * * *
28311439 AAAATTACCAAAATACCCTCGATCAATAAAATTACCAAAATACCC-CTGGTTTGTAAAATTACTA
1 AAAATTACTAAATTACCCTCGATTTATAAAATTACCATTTTACCCTC-GATTTATAAAATTACCA
* * **
28311503 AAATACCCTTGGTTTGT
65 AAATACCCTCGATTTAC
* * * * *** * *
28311520 AAAATTACTAAAATACCTTTGGTTTATAAAATTACCAAAATACCC-CTGGTTTGTAAAATTACCA
1 AAAATTACTAAATTACCCTCGATTTATAAAATTACCATTTTACCCTC-GATTTATAAAATTACCA
*
28311584 AAATACCCTTGATTTAC
65 AAATACCCTCGATTTAC
* * * * ** *** * * *
28311601 AAAATTACCAAAATACCCTTGGTTTGGAAAATTACCAAAATACCATTGGTTTATAAAATTACCAA
1 AAAATTACTAAATTACCCTCGATTTATAAAATTACCATTTTACCCTCGATTTATAAAATTACCAA
28311666 AATACCC
66 AATACCC
28311673 CTAATTTGTG
Statistics
Matches: 476, Mismatches: 80, Indels: 4
0.85 0.14 0.01
Matches are distributed among these distances:
80 1 0.00
81 475 1.00
ACGTcount: A:0.36, C:0.21, G:0.07, T:0.36
Consensus pattern (81 bp):
AAAATTACTAAATTACCCTCGATTTATAAAATTACCATTTTACCCTCGATTTATAAAATTACCAA
AATACCCTCGATTTAC
Found at i:28311476 original size:27 final size:27
Alignment explanation
Indices: 28311371--28311672 Score: 352
Period size: 27 Copynumber: 11.2 Consensus size: 27
28311361 ATAACTATTT
* * ***
28311371 TACCCTCGATTTATAAAATTACCATTT
1 TACCCTTGGTTTATAAAATTACCAAAA
* * * *
28311398 TACCCTCGATTTACAAAATTACTAAAA
1 TACCCTTGGTTTATAAAATTACCAAAA
* *
28311425 TACCCTTGATTTACAAAATTACCAAAA
1 TACCCTTGGTTTATAAAATTACCAAAA
* * **
28311452 TACCCTCGATCAATAAAATTACCAAAA
1 TACCCTTGGTTTATAAAATTACCAAAA
* * *
28311479 TACCCCTGGTTTGTAAAATTACTAAAA
1 TACCCTTGGTTTATAAAATTACCAAAA
* *
28311506 TACCCTTGGTTTGTAAAATTACTAAAA
1 TACCCTTGGTTTATAAAATTACCAAAA
*
28311533 TACCTTTGGTTTATAAAATTACCAAAA
1 TACCCTTGGTTTATAAAATTACCAAAA
* *
28311560 TACCCCTGGTTTGTAAAATTACCAAAA
1 TACCCTTGGTTTATAAAATTACCAAAA
* *
28311587 TACCCTTGATTTACAAAATTACCAAAA
1 TACCCTTGGTTTATAAAATTACCAAAA
**
28311614 TACCCTTGGTTTGGAAAATTACCAAAA
1 TACCCTTGGTTTATAAAATTACCAAAA
*
28311641 TACCATTGGTTTATAAAATTACCAAAA
1 TACCCTTGGTTTATAAAATTACCAAAA
28311668 TACCC
1 TACCC
28311673 CTAATTTGTG
Statistics
Matches: 239, Mismatches: 36, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 239 1.00
ACGTcount: A:0.40, C:0.21, G:0.07, T:0.32
Consensus pattern (27 bp):
TACCCTTGGTTTATAAAATTACCAAAA
Found at i:28311984 original size:25 final size:25
Alignment explanation
Indices: 28311950--28312019 Score: 131
Period size: 25 Copynumber: 2.8 Consensus size: 25
28311940 AGGAAGTGCT
*
28311950 AAAAGGGCTTTGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCA
28311975 AAAAGGGCTTTGCCCCAGTTTACCA
1 AAAAGGGCTTTGCCCCAGTTTACCA
28312000 AAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
28312020 ATTAAAAGTG
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
25 44 1.00
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCA
Found at i:28314971 original size:27 final size:27
Alignment explanation
Indices: 28314819--28315215 Score: 236
Period size: 27 Copynumber: 14.7 Consensus size: 27
28314809 CCTCAAATTG
*
28314819 TAAAATTA-CAAAAGTACCCTCAATTTA
1 TAAAATTACCAAAA-TACCCTCGATTTA
* ****
28314846 TAGAATTACCGTTTTACCCTCGATTTA
1 TAAAATTACCAAAATACCCTCGATTTA
* * *** * *
28314873 CAGAATTACCATTTTACCCTCAATTTG
1 TAAAATTACCAAAATACCCTCGATTTA
* * ****
28314900 CAGAATTACCGTTTTACCCTCGATTTA
1 TAAAATTACCAAAATACCCTCGATTTA
* *****
28314927 TAGAATTACTGTTTTACCCTCGATTTA
1 TAAAATTACCAAAATACCCTCGATTTA
* * * *
28314954 CAAAATTACTAAAATACCCTTGGTTTA
1 TAAAATTACCAAAATACCCTCGATTTA
* *
28314981 CAAAATTACCAAAATACCCTCGA-TCA
1 TAAAATTACCAAAATACCCTCGATTTA
* *
28315007 GTAAAATTACCAAAATACCCTAG-TTTG
1 -TAAAATTACCAAAATACCCTCGATTTA
* * * *
28315034 TAAAATTGCTAAAATACCC-CTGGTTTG
1 TAAAATTACCAAAATACCCTC-GATTTA
* *
28315061 TAAAATTA-CAGAAATACCCTCAATTTG
1 TAAAATTACCA-AAATACCCTCGATTTA
* *
28315088 TAAAATTACCAAAATACCC-CTAGTTTG
1 TAAAATTACCAAAATACCCTCGA-TTTA
* *
28315115 TAAAATTACCAAAATACCACT-GGTTTG
1 TAAAATTACCAAAATACC-CTCGATTTA
* *
28315142 TAAAATTACCAAAATACCCTCAATTTG
1 TAAAATTACCAAAATACCCTCGATTTA
28315169 TAAAATTACCAAAATACCC-CTGATTTA
1 TAAAATTACCAAAATACCCTC-GATTTA
* *
28315196 CAAAGTTA-CAGAAATACCCT
1 TAAAATTACCA-AAATACCCT
28315216 TGACTTTCTA
Statistics
Matches: 308, Mismatches: 47, Indels: 29
0.80 0.12 0.08
Matches are distributed among these distances:
26 28 0.09
27 275 0.89
28 5 0.02
ACGTcount: A:0.38, C:0.22, G:0.08, T:0.32
Consensus pattern (27 bp):
TAAAATTACCAAAATACCCTCGATTTA
Found at i:28314999 original size:81 final size:81
Alignment explanation
Indices: 28314788--28315004 Score: 211
Period size: 81 Copynumber: 2.7 Consensus size: 81
28314778 AATACTTTAG
* ** * * ** *
28314788 TTTACCAAATTACTGAAATGCCCTCAAATTGTAAAATTA-CAAAAGTACCCTCAATTTATAGAAT
1 TTTACAAAATTACCAAAATACCCTCAATTTACAAAATTACCAAAA-TACCCTCGATTTATAGAAT
28314852 TACCGTTTTACCCTCGA
65 TACCGTTTTACCCTCGA
* *** * * ****
28314869 TTTACAGAATTACCATTTTACCCTCAATTTGCAGAATTACCGTTTTACCCTCGATTTATAGAATT
1 TTTACAAAATTACCAAAATACCCTCAATTTACAAAATTACCAAAATACCCTCGATTTATAGAATT
*
28314934 ACTGTTTTACCCTCGA
66 ACCGTTTTACCCTCGA
* ***
28314950 TTTACAAAATTACTAAAATACCCTTGGTTTACAAAATTACCAAAATACCCTCGAT
1 TTTACAAAATTACCAAAATACCCTCAATTTACAAAATTACCAAAATACCCTCGAT
28315005 CAGTAAAATT
Statistics
Matches: 104, Mismatches: 31, Indels: 2
0.76 0.23 0.01
Matches are distributed among these distances:
81 103 0.99
82 1 0.01
ACGTcount: A:0.35, C:0.23, G:0.08, T:0.35
Consensus pattern (81 bp):
TTTACAAAATTACCAAAATACCCTCAATTTACAAAATTACCAAAATACCCTCGATTTATAGAATT
ACCGTTTTACCCTCGA
Found at i:28315105 original size:54 final size:53
Alignment explanation
Indices: 28314941--28315187 Score: 266
Period size: 54 Copynumber: 4.6 Consensus size: 53
28314931 ATTACTGTTT
* ** * * **
28314941 TACCCTCGATTTACAAAATTACTAAAATACCCTTGGTTTACAAAATTACCAAAA
1 TACCCTCAATTTGTAAAATTACCAAAATACCC-TAGTTTGTAAAATTACCAAAA
* ** * *
28314995 TACCCTCGATCAGTAAAATTACCAAAATACCCTAGTTTGTAAAATTGCTAAAA
1 TACCCTCAATTTGTAAAATTACCAAAATACCCTAGTTTGTAAAATTACCAAAA
** *
28315048 TACCC-CTGGTTTGTAAAATTA-CAGAAATACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTC-AATTTGTAAAATTACCA-AAATACCCT-AGTTTGTAAAATTACCAAAA
* *
28315102 TACCC-CTAGTTTGTAAAATTACCAAAATACCACTGGTTTGTAAAATTACCAAAA
1 TACCCTC-AATTTGTAAAATTACCAAAATACC-CTAGTTTGTAAAATTACCAAAA
28315156 TACCCTCAATTTGTAAAATTACCAAAATACCC
1 TACCCTCAATTTGTAAAATTACCAAAATACCC
28315188 CTGATTTACA
Statistics
Matches: 167, Mismatches: 20, Indels: 13
0.83 0.10 0.06
Matches are distributed among these distances:
52 3 0.02
53 42 0.25
54 117 0.70
55 5 0.03
ACGTcount: A:0.41, C:0.22, G:0.08, T:0.29
Consensus pattern (53 bp):
TACCCTCAATTTGTAAAATTACCAAAATACCCTAGTTTGTAAAATTACCAAAA
Found at i:28315188 original size:81 final size:80
Alignment explanation
Indices: 28314955--28315189 Score: 357
Period size: 81 Copynumber: 2.9 Consensus size: 80
28314945 CTCGATTTAC
** * **
28314955 AAAATTACTAAAATACCCTTGGTTTACAAAATTACCAAAATACCCTCGATCAGTAAAATTACCAA
1 AAAATTACTAAAATACCC-TGGTTTGTAAAATTACCAAAATACCCTCAATTTGTAAAATTACCAA
28315020 AATA-CCCTAGTTTGT
65 AATACCCCTAGTTTGT
*
28315035 AAAATTGCTAAAATACCCCTGGTTTGTAAAATTA-CAGAAATACCCTCAATTTGTAAAATTACCA
1 AAAATTACTAAAATA-CCCTGGTTTGTAAAATTACCA-AAATACCCTCAATTTGTAAAATTACCA
28315099 AAATACCCCTAGTTTGT
64 AAATACCCCTAGTTTGT
*
28315116 AAAATTACCAAAATACCACTGGTTTGTAAAATTACCAAAATACCCTCAATTTGTAAAATTACCAA
1 AAAATTACTAAAATACC-CTGGTTTGTAAAATTACCAAAATACCCTCAATTTGTAAAATTACCAA
28315181 AATACCCCT
65 AATACCCCT
28315190 GATTTACAAA
Statistics
Matches: 142, Mismatches: 8, Indels: 9
0.89 0.05 0.06
Matches are distributed among these distances:
79 2 0.01
80 58 0.41
81 80 0.56
82 2 0.01
ACGTcount: A:0.42, C:0.21, G:0.08, T:0.29
Consensus pattern (80 bp):
AAAATTACTAAAATACCCTGGTTTGTAAAATTACCAAAATACCCTCAATTTGTAAAATTACCAAA
ATACCCCTAGTTTGT
Found at i:28315211 original size:54 final size:54
Alignment explanation
Indices: 28314941--28315297 Score: 260
Period size: 54 Copynumber: 6.6 Consensus size: 54
28314931 ATTACTGTTT
** * * *
28314941 TACCCTCGATTTACAAAATTACTAAAATACCCTTGGTTTACAAAATTACCAAAA
1 TACCCTCGATTTGTAAAATTACCAAAATACCCCTGATTTACAAAATTACCAAAA
** ** * *
28314995 TACCCTCGATCAGTAAAATTACCAAAATA-CCCT-AGTTTGTAAAATTGCTAAAA
1 TACCCTCGATTTGTAAAATTACCAAAATACCCCTGA-TTTACAAAATTACCAAAA
* * **
28315048 TACCC-CTGGTTTGTAAAATTA-CAGAAATA-CCCTCAATTTGTAAAATTACCAAAA
1 TACCCTC-GATTTGTAAAATTACCA-AAATACCCCT-GATTTACAAAATTACCAAAA
* * * **
28315102 TACCC-CTAGTTTGTAAAATTACCAAAATACCACTGGTTTGTAAAATTACCAAAA
1 TACCCTCGA-TTTGTAAAATTACCAAAATACCCCTGATTTACAAAATTACCAAAA
* *
28315156 TACCCTCAATTTGTAAAATTACCAAAATACCCCTGATTTACAAAGTTA-CAGAAA
1 TACCCTCGATTTGTAAAATTACCAAAATACCCCTGATTTACAAAATTACCA-AAA
* * *** ** * **
28315210 TACCCTTGACTTTCTAAAAATTATGGAAATACCATTGGTTTACAAAATTACTGAAA
1 TACCCTCGA-TTTGT-AAAATTACCAAAATACCCCTGATTTACAAAATTACCAAAA
* * * * *
28315266 TACCCTTGGTTTGTAGATTTACCAAAACACCC
1 TACCCTCGATTTGTAAAATTACCAAAATACCC
28315298 TTGTAGGATG
Statistics
Matches: 242, Mismatches: 48, Indels: 26
0.77 0.15 0.08
Matches are distributed among these distances:
52 3 0.01
53 44 0.18
54 141 0.58
55 16 0.07
56 38 0.16
ACGTcount: A:0.40, C:0.21, G:0.09, T:0.30
Consensus pattern (54 bp):
TACCCTCGATTTGTAAAATTACCAAAATACCCCTGATTTACAAAATTACCAAAA
Found at i:28315265 original size:27 final size:27
Alignment explanation
Indices: 28315226--28315277 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
28315216 TGACTTTCTA
28315226 AAAATTATGGAAATACCATTGGTTTAC
1 AAAATTATGGAAATACCATTGGTTTAC
*
28315253 AAAATTACT-GAAATACCCTTGGTTT
1 AAAATTA-TGGAAATACCATTGGTTT
28315278 GTAGATTTAC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
27 22 0.96
28 1 0.04
ACGTcount: A:0.38, C:0.13, G:0.13, T:0.35
Consensus pattern (27 bp):
AAAATTATGGAAATACCATTGGTTTAC
Found at i:28315352 original size:27 final size:27
Alignment explanation
Indices: 28315322--28315418 Score: 88
Period size: 27 Copynumber: 3.6 Consensus size: 27
28315312 GACTAAAATA
** *
28315322 CCCCTATTTGGTAAAAAGATCGTAAAG
1 CCCCTATAGGGTAAAAAGACCGTAAAG
* * *
28315349 CCCCTGTAGGGTAAAGAGACCGTAAAT
1 CCCCTATAGGGTAAAAAGACCGTAAAG
* **
28315376 CCCCTGTAGGGTAAAGTGACCGTAATA-
1 CCCCTATAGGGTAAAAAGACCGTAA-AG
*
28315403 CCCCTATATGGTAAAA
1 CCCCTATAGGGTAAAA
28315419 TGGAAAATAT
Statistics
Matches: 59, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
27 58 0.98
28 1 0.02
ACGTcount: A:0.34, C:0.22, G:0.22, T:0.23
Consensus pattern (27 bp):
CCCCTATAGGGTAAAAAGACCGTAAAG
Found at i:28316284 original size:25 final size:26
Alignment explanation
Indices: 28316223--28316368 Score: 217
Period size: 26 Copynumber: 5.7 Consensus size: 26
28316213 GAGGAAGTCC
*
28316223 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACTG
*
28316249 AAAAGGGCTTATGCCCCAGTTTAGTG
1 AAAAGGGCTTATGCCCCAGTTTACTG
* *
28316275 -AAAGGGCTTATGCCCTAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACTG
*
28316300 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACTG
*
28316326 AAAAGGGCTT-TGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACTG
28316351 AAAAGGGCTT-TGCCCCAG
1 AAAAGGGCTTATGCCCCAG
28316369 ATATTAAAGA
Statistics
Matches: 110, Mismatches: 9, Indels: 3
0.90 0.07 0.02
Matches are distributed among these distances:
25 53 0.48
26 57 0.52
ACGTcount: A:0.26, C:0.23, G:0.25, T:0.27
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTACTG
Found at i:28316303 original size:51 final size:52
Alignment explanation
Indices: 28316223--28316368 Score: 235
Period size: 51 Copynumber: 2.9 Consensus size: 52
28316213 GAGGAAGTCC
**
28316223 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATGCCCCAGTTTAGTG
1 AAAAGGGCTTATGCCCCAGTTTACCGAAAAGGGCTTATGCCCCAGTTTAGTG
* *
28316275 -AAAGGGCTTATGCCCTAGTTTACCGAAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACCGAAAAGGGCTTATGCCCCAGTTTAGTG
28316326 AAAAGGGCTT-TGCCCCAGTTTACCGAAAAGGGCTT-TGCCCCAG
1 AAAAGGGCTTATGCCCCAGTTTACCGAAAAGGGCTTATGCCCCAG
28316369 ATATTAAAGA
Statistics
Matches: 88, Mismatches: 5, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
50 8 0.09
51 71 0.81
52 9 0.10
ACGTcount: A:0.26, C:0.23, G:0.25, T:0.27
Consensus pattern (52 bp):
AAAAGGGCTTATGCCCCAGTTTACCGAAAAGGGCTTATGCCCCAGTTTAGTG
Found at i:28316574 original size:42 final size:42
Alignment explanation
Indices: 28316515--28316602 Score: 131
Period size: 42 Copynumber: 2.1 Consensus size: 42
28316505 TAGTCTCCCC
* ** *
28316515 AAATGGGCTTGCATACATTCATTGGTATTTCATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
*
28316557 AAATGGGCTTGTATACATCCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
28316599 AAAT
1 AAAT
28316603 AGGCCTAAGG
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.31, C:0.12, G:0.19, T:0.38
Consensus pattern (42 bp):
AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
Found at i:28316667 original size:31 final size:31
Alignment explanation
Indices: 28316630--28316706 Score: 102
Period size: 31 Copynumber: 2.5 Consensus size: 31
28316620 CGTTTACAGT
* *
28316630 AAAGGCTTTGGCCTAATGATATGA-TTTATGA
1 AAAGGCTTCGGCCCAATGATATGAGTTT-TGA
*
28316661 AAAGGCTTCGGCCCAGTGATATGAGTTTTGA
1 AAAGGCTTCGGCCCAATGATATGAGTTTTGA
*
28316692 AAAGGCTTCAGCCCA
1 AAAGGCTTCGGCCCA
28316707 GTAACCGTTA
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
31 38 0.93
32 3 0.07
ACGTcount: A:0.30, C:0.17, G:0.25, T:0.29
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAATGATATGAGTTTTGA
Found at i:28318008 original size:43 final size:43
Alignment explanation
Indices: 28317852--28318017 Score: 192
Period size: 43 Copynumber: 3.9 Consensus size: 43
28317842 ATTATCAAGA
* * *
28317852 TGTGATTACATGTAAGACCATGTCTGAGACATTGACATGGTAT
1 TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTAT
* *
28317895 TGTGATTACGTGTAAGACCATGTCTGGAACATTGGCATCGTAT
1 TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTAT
* * * * *
28317938 TATGATTTCGTGTAAGACCTTGTCTGGGACAGTGGCATCG-AT
1 TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTAT
* * *
28317980 ATGTGATAACATGTAAGACCATATCTGGGATA-TGGCAT
1 -TGTGATTACATGTAAGACCATGTCTGGGACATTGGCAT
28318018 TGTGTGAGCT
Statistics
Matches: 105, Mismatches: 17, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
42 8 0.08
43 97 0.92
ACGTcount: A:0.28, C:0.15, G:0.25, T:0.32
Consensus pattern (43 bp):
TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTAT
Found at i:28329629 original size:45 final size:48
Alignment explanation
Indices: 28329565--28329683 Score: 145
Period size: 48 Copynumber: 2.5 Consensus size: 48
28329555 GACAGGACAG
* * *
28329565 GACAGAAATGAGCCATGTAAGTCCATA-T-CA-GTATATGGCTTTGGA
1 GACAGGAATGAGCCATGTAAGTCCATATTACATATATATGGCATTGGA
* *
28329610 GACAGGAATGAGCCATGTAAGCCCATATTATATATATATGGCATTGGA
1 GACAGGAATGAGCCATGTAAGTCCATATTACATATATATGGCATTGGA
* **
28329658 GACAGGAATAATTCATGTAAGTCCAT
1 GACAGGAATGAGCCATGTAAGTCCAT
28329684 GTCGAAGACA
Statistics
Matches: 62, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
45 25 0.40
46 1 0.02
47 1 0.02
48 35 0.56
ACGTcount: A:0.35, C:0.15, G:0.23, T:0.27
Consensus pattern (48 bp):
GACAGGAATGAGCCATGTAAGTCCATATTACATATATATGGCATTGGA
Found at i:28329665 original size:48 final size:45
Alignment explanation
Indices: 28329565--28329702 Score: 132
Period size: 48 Copynumber: 3.0 Consensus size: 45
28329555 GACAGGACAG
* * * *
28329565 GACAGAAATGAGCCATGTAAGTCCATATCAGTATATGGCTTTGGA
1 GACAGGAATGAGCCATGTAAGCCCATATCAATATATGGCATTGGA
*
28329610 GACAGGAATGAGCCATGTAAGCCCATATTATATATATATGGCATTGGA
1 GACAGGAATGAGCCATGTAAGCCCATA-T-CA-ATATATGGCATTGGA
* ** * * * *
28329658 GACAGGAATAATTCATGTAAGTCCATGTCGAAGACATGGCATTGG
1 GACAGGAATGAGCCATGTAAGCCCATATC-AATATATGGCATTGG
28329703 CAGGATATTG
Statistics
Matches: 76, Mismatches: 13, Indels: 7
0.79 0.14 0.07
Matches are distributed among these distances:
45 25 0.33
46 13 0.17
47 3 0.04
48 35 0.46
ACGTcount: A:0.34, C:0.15, G:0.25, T:0.26
Consensus pattern (45 bp):
GACAGGAATGAGCCATGTAAGCCCATATCAATATATGGCATTGGA
Found at i:28332269 original size:43 final size:43
Alignment explanation
Indices: 28332179--28332287 Score: 130
Period size: 43 Copynumber: 2.5 Consensus size: 43
28332169 TATCGAGATG
* * * *
28332179 TGATTACATGTAAAACCATGTCTGGGACATTGGCATTGCATTG
1 TGATTACATGTAAGACCATGTCTAGGACATTGACATTGCATTA
* *
28332222 TGATTACATGTAAGACCATGTCTAGGACATTGATATTGTATTA
1 TGATTACATGTAAGACCATGTCTAGGACATTGACATTGCATTA
* *
28332265 TGATTTCGA-GTAAGACCCTGTCT
1 TGATTAC-ATGTAAGACCATGTCT
28332288 GTAACACCCC
Statistics
Matches: 57, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
43 56 0.98
44 1 0.02
ACGTcount: A:0.28, C:0.16, G:0.21, T:0.35
Consensus pattern (43 bp):
TGATTACATGTAAGACCATGTCTAGGACATTGACATTGCATTA
Found at i:28334283 original size:585 final size:585
Alignment explanation
Indices: 28333173--28334345 Score: 2274
Period size: 585 Copynumber: 2.0 Consensus size: 585
28333163 ACCAAACTTA
28333173 TAAGCATTTATACTCATGCATAACCTTAACCAAATTATACTCAAGTATAATTAAAATTATTTACC
1 TAAGCATTTATACTCATGCATAACCTTAACCAAATTATACTCAAGTATAATTAAAATTATTTACC
28333238 AATTCTGGCATATATTAACTACCACATTTACTATGCATCTTAGTAAATAGCTTAATAAATAGGAT
66 AATTCTGGCATATATTAACTACCACATTTACTATGCATCTTAGTAAATAGCTTAATAAATAGGAT
*
28333303 ATACATAATCCATGAGCAAAATGACTAAAATTTCGAACATGAAGTTAAGGCATTTTCAATGCATA
131 ATACATAATCCATAAGCAAAATGACTAAAATTTCGAACATGAAGTTAAGGCATTTTCAATGCATA
*
28333368 AAACTCTTACCACAAGTCATTCATGCATAATACTGGGCACTTTAAACTAACGAATTTCAAGTATA
196 AAACTCTTACCACAAGTCATTCATGCATAATACTGGGCACTTTAAACTAACGAATTTCAAGTACA
28333433 GTAAAGCATAACCGAGTTATCAATACCAAGCTTACTAAACTTTGTAACCAAGCACACATAAAACC
261 GTAAAGCATAACCGAGTTATCAATACCAAGCTTACTAAACTTTGTAACCAAGCACACATAAAACC
28333498 AAATCTAAACATAAATAGCAAGCCATTTTCGCATGGCTTAAATACATAACCAAAATCAATATCTC
326 AAATCTAAACATAAATAGCAAGCCATTTTCGCATGGCTTAAATACATAACCAAAATCAATATCTC
28333563 AAAAGTATGTTCCAGCCTATACATGCCATAATACGAATTTGATTATCTAAATACCGAAGCTGTAG
391 AAAAGTATGTTCCAGCCTATACATGCCATAATACGAATTTGATTATCTAAATACCGAAGCTGTAG
*
28333628 ATAGTGTGCTGAGCTTGGCTGATAGTTCCCGAGCTTGTAGCTTGACTTCAAAATCTATAAAACAG
456 ATAGTGTCCTGAGCTTGGCTGATAGTTCCCGAGCTTGTAGCTTGACTTCAAAATCTATAAAACAG
*
28333693 AGTAAGCATAGCACACAAAGTAAGCTATCAAGGCGTAGTAAGTTATAAGCAAATAAACAACTCAT
521 AGTAAGCATAGCACACAAAGTAAGCTATCAAGGCGTAGTAAGTCATAAGCAAATAAACAACTCAT
28333758 TAAGCATTTATACTCATGCATAACCTTAACCAAATTATACTCAAGTATAATTAAAATTATTTACC
1 TAAGCATTTATACTCATGCATAACCTTAACCAAATTATACTCAAGTATAATTAAAATTATTTACC
* *
28333823 AATTCTGGTATATATTAACTACCACATTTACTATGCATCTTAGTACATAGCTTAATAAATAGGAT
66 AATTCTGGCATATATTAACTACCACATTTACTATGCATCTTAGTAAATAGCTTAATAAATAGGAT
28333888 ATACATAATCCATAAGCAAAATGACTAAAATTTCGAACATGAAGTTAAGGCATTTTCAATGCATA
131 ATACATAATCCATAAGCAAAATGACTAAAATTTCGAACATGAAGTTAAGGCATTTTCAATGCATA
*
28333953 AAACTCTTACCACAAGTCATTCATGCATAATACTGGGCACTTTAAATTAACGAATTTCAAGTACA
196 AAACTCTTACCACAAGTCATTCATGCATAATACTGGGCACTTTAAACTAACGAATTTCAAGTACA
28334018 GTAAAGCATAACCGAGTTATCAATACCAAGCTTACTAAACTTTGTAACCAAGCACACATAAAACC
261 GTAAAGCATAACCGAGTTATCAATACCAAGCTTACTAAACTTTGTAACCAAGCACACATAAAACC
28334083 AAATCTAAACATAAATAGCAAGCCATTTTCGCATGGCTTAAATACATAACCAAAATCAATATCTC
326 AAATCTAAACATAAATAGCAAGCCATTTTCGCATGGCTTAAATACATAACCAAAATCAATATCTC
*
28334148 AAAAGTATGTTCCAGCCTATACATGCCATAATACGAGTTTGATTATCTAAATACCGAAGCTGTAG
391 AAAAGTATGTTCCAGCCTATACATGCCATAATACGAATTTGATTATCTAAATACCGAAGCTGTAG
28334213 ATAGTGTCCTGAGCTTGGCTGATAGTTCCCGAGCTTGTAGCTTGACTTCAAAATCTATAAAACAG
456 ATAGTGTCCTGAGCTTGGCTGATAGTTCCCGAGCTTGTAGCTTGACTTCAAAATCTATAAAACAG
28334278 AGTAAGCATAGCACACAAAGTAAGCTATCAAGGCGTAGTAAGTCATAAGCAAATAAACAACTCAT
521 AGTAAGCATAGCACACAAAGTAAGCTATCAAGGCGTAGTAAGTCATAAGCAAATAAACAACTCAT
28334343 TAA
1 TAA
28334346 TATAATTGAC
Statistics
Matches: 580, Mismatches: 8, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
585 580 1.00
ACGTcount: A:0.40, C:0.19, G:0.13, T:0.28
Consensus pattern (585 bp):
TAAGCATTTATACTCATGCATAACCTTAACCAAATTATACTCAAGTATAATTAAAATTATTTACC
AATTCTGGCATATATTAACTACCACATTTACTATGCATCTTAGTAAATAGCTTAATAAATAGGAT
ATACATAATCCATAAGCAAAATGACTAAAATTTCGAACATGAAGTTAAGGCATTTTCAATGCATA
AAACTCTTACCACAAGTCATTCATGCATAATACTGGGCACTTTAAACTAACGAATTTCAAGTACA
GTAAAGCATAACCGAGTTATCAATACCAAGCTTACTAAACTTTGTAACCAAGCACACATAAAACC
AAATCTAAACATAAATAGCAAGCCATTTTCGCATGGCTTAAATACATAACCAAAATCAATATCTC
AAAAGTATGTTCCAGCCTATACATGCCATAATACGAATTTGATTATCTAAATACCGAAGCTGTAG
ATAGTGTCCTGAGCTTGGCTGATAGTTCCCGAGCTTGTAGCTTGACTTCAAAATCTATAAAACAG
AGTAAGCATAGCACACAAAGTAAGCTATCAAGGCGTAGTAAGTCATAAGCAAATAAACAACTCAT
Found at i:28338068 original size:93 final size:93
Alignment explanation
Indices: 28337956--28338126 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
28337946 GCCCATAAGT
*
28337956 GAACTCGGACTCAACTCAACGAGCTCGG-CGTTCGCATCGCATAAGTGAACTCGGACTCAACTCA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATC-CATAAGTGAACTCGGACTCAACTCA
28338020 ACGAGTTCGGATGCCTAGTTACATCTCAC
65 ACGAGTTCGGATGCCTAGTTACATCTCAC
*
28338049 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
28338114 CGAGTTCGGATGC
66 CGAGTTCGGATGC
28338127 TCAACCATCC
Statistics
Matches: 75, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
93 66 0.88
94 9 0.12
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:28338123 original size:46 final size:46
Alignment explanation
Indices: 28337948--28338123 Score: 218
Period size: 46 Copynumber: 3.8 Consensus size: 46
28337938 TGTAACCCGC
* *
28337948 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG-CGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
28337993 CGCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 C-CATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
* *
28338044 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
28338087 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
28338124 TGCTCAACCA
Statistics
Matches: 112, Mismatches: 8, Indels: 21
0.79 0.06 0.15
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 3 0.03
46 63 0.56
47 29 0.26
48 2 0.02
49 1 0.01
50 1 0.01
51 3 0.03
52 2 0.02
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:28340535 original size:30 final size:30
Alignment explanation
Indices: 28340491--28340579 Score: 94
Period size: 30 Copynumber: 3.0 Consensus size: 30
28340481 CAAAGATAAC
*
28340491 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAACCCGGAATAAAGAAATCCAAGATA
*
28340520 GAGAAACCCGGAATAAAGAAATCC-AGAATA
1 AAGAAACCCGGAATAAAGAAATCCAAG-ATA
* * *
28340550 AAGAGATCCAGG-ATAAAGAAACCCAAGATA
1 AAGA-AACCCGGAATAAAGAAATCCAAGATA
28340580 CGATACTATG
Statistics
Matches: 50, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
29 9 0.18
30 34 0.68
31 7 0.14
ACGTcount: A:0.56, C:0.16, G:0.18, T:0.10
Consensus pattern (30 bp):
AAGAAACCCGGAATAAAGAAATCCAAGATA
Found at i:28340539 original size:15 final size:14
Alignment explanation
Indices: 28340491--28340573 Score: 58
Period size: 15 Copynumber: 5.6 Consensus size: 14
28340481 CAAAGATAAC
*
28340491 AAGAAAACCGAATA
1 AAGAAACCCGAATA
* *
28340505 AAGAAATCCAAGATA
1 AAGAAACCCGA-ATA
*
28340520 GAGAAACCCGGAATA
1 AAGAAACCC-GAATA
*
28340535 AAGAAATCCAGAATA
1 AAGAAA-CCCGAATA
* * *
28340550 AAGAGATCCAGGATA
1 AAGA-AACCCGAATA
28340565 AAGAAACCC
1 AAGAAACCC
28340574 AAGATACGAT
Statistics
Matches: 54, Mismatches: 11, Indels: 8
0.74 0.15 0.11
Matches are distributed among these distances:
14 12 0.22
15 38 0.70
16 4 0.07
ACGTcount: A:0.55, C:0.17, G:0.18, T:0.10
Consensus pattern (14 bp):
AAGAAACCCGAATA
Found at i:28340579 original size:15 final size:15
Alignment explanation
Indices: 28340502--28340579 Score: 70
Period size: 15 Copynumber: 5.2 Consensus size: 15
28340492 AGAAAACCGA
28340502 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* **
28340517 ATAGAGAAA-CCCGG
1 ATAAAGAAATCCAAG
28340531 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
28340546 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
28340562 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
28340577 ATA
1 ATA
28340580 CGATACTATG
Statistics
Matches: 50, Mismatches: 10, Indels: 6
0.76 0.15 0.09
Matches are distributed among these distances:
14 3 0.06
15 44 0.88
16 3 0.06
ACGTcount: A:0.55, C:0.15, G:0.18, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:28341428 original size:25 final size:25
Alignment explanation
Indices: 28341394--28341442 Score: 98
Period size: 25 Copynumber: 2.0 Consensus size: 25
28341384 TTGTAGGACC
28341394 TCTGACTCGACTTTCTTATACATAA
1 TCTGACTCGACTTTCTTATACATAA
28341419 TCTGACTCGACTTTCTTATACATA
1 TCTGACTCGACTTTCTTATACATA
28341443 CACATATGAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.27, C:0.24, G:0.08, T:0.41
Consensus pattern (25 bp):
TCTGACTCGACTTTCTTATACATAA
Found at i:28343630 original size:47 final size:47
Alignment explanation
Indices: 28343561--28343729 Score: 216
Period size: 47 Copynumber: 3.6 Consensus size: 47
28343551 ATCCATAAGT
* *
28343561 GAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCTC
1 GAACTCAGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCTC
* * * * * ***
28343608 GAACTCGGACTCAACTCAACGAGTTCGGACG-CTCGCATCCATAAGT-
1 GAACTCAGACTCAACTCAACGAGTTCGGATGCCTAG-TTACATCTCTC
*
28343654 GAACTCAGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
1 GAACTCAGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCTC
28343701 GAACTCAGACTCAACTCAACGAGTTCGGA
1 GAACTCAGACTCAACTCAACGAGTTCGGA
28343730 CATTCGCATC
Statistics
Matches: 102, Mismatches: 17, Indels: 6
0.82 0.14 0.05
Matches are distributed among these distances:
46 36 0.35
47 66 0.65
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.21
Consensus pattern (47 bp):
GAACTCAGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCTC
Found at i:28343674 original size:93 final size:93
Alignment explanation
Indices: 28343516--28343778 Score: 456
Period size: 93 Copynumber: 2.8 Consensus size: 93
28343506 GCCCATAAGT
* *
28343516 GAACTCGGACTCAACTCAACGAGCTCGG-CGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCATCCATAAGTGAACTCAGACTCAACTCAA
* *
28343580 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
28343608 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCAGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCATCCATAAGTGAACTCAGACTCAACTCAA
28343673 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* *
28343701 GAACTCAGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCATCCATAAGTGAACTCAGACTCAACTCAA
28343766 CGAGTTCGGATGC
66 CGAGTTCGGATGC
28343779 TCAACCATCC
Statistics
Matches: 162, Mismatches: 8, Indels: 1
0.95 0.05 0.01
Matches are distributed among these distances:
92 27 0.17
93 135 0.83
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCATCCATAAGTGAACTCAGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:28343675 original size:46 final size:46
Alignment explanation
Indices: 28343508--28343780 Score: 277
Period size: 46 Copynumber: 5.9 Consensus size: 46
28343498 TGTAACCCGC
* * *
28343508 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG-CGTTCGCAT
1 CCATAAGTGAACTCAGACTCAACTCAACGAGTTCGGACGCTCGCAT
* * * * *
28343553 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAG-TT
1 CCATAAGTGAACTCAGACTCAACTCAACGAGTTCGGACG-CTCGCAT
* *** *
28343599 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGT-GAACTCAGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
28343646 CCATAAGTGAACTCAGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCAGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* * **
28343696 -C-TCA-CGAACTCAGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCAGACTCAACTCAACGAGTTCGGACGCTCGCAT
*
28343739 CCATAAGTGAACTCAGACTCAACTCAACGAGTTCGGATGCTC
1 CCATAAGTGAACTCAGACTCAACTCAACGAGTTCGGACGCTC
28343781 AACCATCCTA
Statistics
Matches: 187, Mismatches: 30, Indels: 21
0.79 0.13 0.09
Matches are distributed among these distances:
43 3 0.02
44 1 0.01
45 38 0.20
46 71 0.38
47 68 0.36
48 2 0.01
49 1 0.01
50 3 0.02
ACGTcount: A:0.29, C:0.30, G:0.19, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCAGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:28353042 original size:31 final size:31
Alignment explanation
Indices: 28353007--28353069 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
28352997 CATAGTTCGT
28353007 AGAAACCAAAGAGAAATAAGGCGAAGCTTAA
1 AGAAACCAAAGAGAAATAAGGCGAAGCTTAA
28353038 AGAAACCAAAGAGAAATAAGGCGAAGCTTAA
1 AGAAACCAAAGAGAAATAAGGCGAAGCTTAA
28353069 A
1 A
28353070 ATACACAGAG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.56, C:0.13, G:0.22, T:0.10
Consensus pattern (31 bp):
AGAAACCAAAGAGAAATAAGGCGAAGCTTAA
Found at i:28369127 original size:25 final size:24
Alignment explanation
Indices: 28369089--28369141 Score: 70
Period size: 25 Copynumber: 2.2 Consensus size: 24
28369079 ATGTTCAAGC
*
28369089 GAGCCATATTAGGAAGCTCAAAAA
1 GAGCCATATCAGGAAGCTCAAAAA
* *
28369113 GAGCCTATATCAGGACGCTCATAAA
1 GAGCC-ATATCAGGAAGCTCAAAAA
28369138 GAGC
1 GAGC
28369142 TACGTTTGTG
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
24 5 0.20
25 20 0.80
ACGTcount: A:0.40, C:0.21, G:0.23, T:0.17
Consensus pattern (24 bp):
GAGCCATATCAGGAAGCTCAAAAA
Found at i:28369648 original size:21 final size:20
Alignment explanation
Indices: 28369618--28369662 Score: 54
Period size: 21 Copynumber: 2.2 Consensus size: 20
28369608 AATGAAGTTA
28369618 ACATTAATTTAATAAAATTC
1 ACATTAATTTAATAAAATTC
* **
28369638 ACATTCAATTTCATTCAATTC
1 ACATT-AATTTAATAAAATTC
28369659 ACAT
1 ACAT
28369663 ATTAGGAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 5 0.24
21 16 0.76
ACGTcount: A:0.42, C:0.18, G:0.00, T:0.40
Consensus pattern (20 bp):
ACATTAATTTAATAAAATTC
Found at i:28371662 original size:34 final size:34
Alignment explanation
Indices: 28371617--28371682 Score: 123
Period size: 34 Copynumber: 1.9 Consensus size: 34
28371607 GCTGTAATAA
*
28371617 TCCCGAGGGCACCTGATGCTCAGCTTTTACTTAC
1 TCCCGAAGGCACCTGATGCTCAGCTTTTACTTAC
28371651 TCCCGAAGGCACCTGATGCTCAGCTTTTACTT
1 TCCCGAAGGCACCTGATGCTCAGCTTTTACTT
28371683 GCTAACATAT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.18, C:0.32, G:0.20, T:0.30
Consensus pattern (34 bp):
TCCCGAAGGCACCTGATGCTCAGCTTTTACTTAC
Found at i:28376904 original size:157 final size:158
Alignment explanation
Indices: 28376617--28376927 Score: 552
Period size: 157 Copynumber: 2.0 Consensus size: 158
28376607 GCGATTTCAT
28376617 GGTCTAAGGCCGATTTGGACCATGATGGCTCAAAATGGGCCGTGTGGGCCCCACGAGCTCGTGGG
1 GGTCTAAGGCCGATTTGGACCATGATGGCTCAAAATGGGCCGTGTGGGCCCCACGAGCTCGTGGG
* *
28376682 CCCCACACGAGTAAACCACACGAGCATGTGGAGATTGTTGGGCAGGCTGTGTAAACTACGCGGCC
66 CCCCACACGAGTAAACCACACGAACATGTGGAGATTGTTGGGCAGGCTGTGTAAACCACGCGGCC
28376747 AAGGCTATTTTTGGCCTTGTGGGCACGA
131 AAGGCTATTTTTGGCCTTGTGGGCACGA
* * *
28376775 GGTCTAAGGCTGATTTGGGCCATGATGGCTCGAAATGGGCCGTGTGGGCCCCACGAGCTC-TGGG
1 GGTCTAAGGCCGATTTGGACCATGATGGCTCAAAATGGGCCGTGTGGGCCCCACGAGCTCGTGGG
*
28376839 CCCCACACGGGTAAACCACACGAACATGTGGAGATTGTTGGGCAGGCTGTGTAAACCACGCGGCC
66 CCCCACACGAGTAAACCACACGAACATGTGGAGATTGTTGGGCAGGCTGTGTAAACCACGCGGCC
*
28376904 AAGGCTATTTTTGGCCTTTTGGGC
131 AAGGCTATTTTTGGCCTTGTGGGC
28376928 CACATAAGTT
Statistics
Matches: 146, Mismatches: 7, Indels: 1
0.95 0.05 0.01
Matches are distributed among these distances:
157 89 0.61
158 57 0.39
ACGTcount: A:0.21, C:0.25, G:0.33, T:0.22
Consensus pattern (158 bp):
GGTCTAAGGCCGATTTGGACCATGATGGCTCAAAATGGGCCGTGTGGGCCCCACGAGCTCGTGGG
CCCCACACGAGTAAACCACACGAACATGTGGAGATTGTTGGGCAGGCTGTGTAAACCACGCGGCC
AAGGCTATTTTTGGCCTTGTGGGCACGA
Found at i:28386269 original size:42 final size:42
Alignment explanation
Indices: 28386199--28386287 Score: 124
Period size: 42 Copynumber: 2.1 Consensus size: 42
28386189 TGCTGGGGAA
* * * *
28386199 ACACGGCCACACCACATGTTCGTACACATGGCCGTGTGTCAC
1 ACACGACCAAACCACACGTCCGTACACATGGCCGTGTGTCAC
* *
28386241 ACACGACCAAACCACACGTCCGTGCACATGGTCGTGTGTCAC
1 ACACGACCAAACCACACGTCCGTACACATGGCCGTGTGTCAC
28386283 ACACG
1 ACACG
28386288 GTTGAGACAC
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.26, C:0.36, G:0.21, T:0.17
Consensus pattern (42 bp):
ACACGACCAAACCACACGTCCGTACACATGGCCGTGTGTCAC
Found at i:28410136 original size:21 final size:20
Alignment explanation
Indices: 28410107--28410151 Score: 54
Period size: 21 Copynumber: 2.2 Consensus size: 20
28410097 AACAAATTTA
28410107 ACATTAATTTAATAAAATTC
1 ACATTAATTTAATAAAATTC
* **
28410127 ACATTCAATTTCATTCAATTC
1 ACATT-AATTTAATAAAATTC
28410148 ACAT
1 ACAT
28410152 CTTAGGAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 5 0.24
21 16 0.76
ACGTcount: A:0.42, C:0.18, G:0.00, T:0.40
Consensus pattern (20 bp):
ACATTAATTTAATAAAATTC
Found at i:28412438 original size:30 final size:30
Alignment explanation
Indices: 28412402--28412470 Score: 129
Period size: 30 Copynumber: 2.3 Consensus size: 30
28412392 ATAGGGCTAA
28412402 CCGTGTGTCACACACGGCCTAGACACATGC
1 CCGTGTGTCACACACGGCCTAGACACATGC
*
28412432 CCGTGTGTCACACATGGCCTAGACACATGC
1 CCGTGTGTCACACACGGCCTAGACACATGC
28412462 CCGTGTGTC
1 CCGTGTGTC
28412471 TACCCATGTG
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 38 1.00
ACGTcount: A:0.20, C:0.35, G:0.25, T:0.20
Consensus pattern (30 bp):
CCGTGTGTCACACACGGCCTAGACACATGC
Found at i:28413919 original size:27 final size:28
Alignment explanation
Indices: 28413876--28413939 Score: 71
Period size: 27 Copynumber: 2.3 Consensus size: 28
28413866 ACATACATGT
*
28413876 ATATGGCCCACTTGGCCC-ATCTC-ATTC
1 ATATGGCCCACTAGGCCCAAT-TCAATTC
28413903 ATATGGCCCA-TCAGGCCCAATTCATATTC
1 ATATGGCCCACT-AGGCCCAATTCA-ATTC
28413932 ATATGGCC
1 ATATGGCC
28413940 TATTAGTCCC
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
26 1 0.03
27 17 0.53
28 2 0.06
29 12 0.38
ACGTcount: A:0.23, C:0.33, G:0.16, T:0.28
Consensus pattern (28 bp):
ATATGGCCCACTAGGCCCAATTCAATTC
Found at i:28413964 original size:29 final size:28
Alignment explanation
Indices: 28413903--28413992 Score: 90
Period size: 29 Copynumber: 3.1 Consensus size: 28
28413893 CATCTCATTC
* * **
28413903 ATATGGCCCATCAGGCCCAATTCATATT
1 ATATGGCCCATTAGGCCCAAATCACCTT
* *
28413931 CATATGGCCTATTAGTCCCAAATCACCTTT
1 -ATATGGCCCATTAGGCCCAAATCACC-TT
* *
28413961 ATATGGCCCGTTAGGCCCATATCACCTT
1 ATATGGCCCATTAGGCCCAAATCACCTT
28413989 ATAT
1 ATAT
28413993 TCAAGCTCAC
Statistics
Matches: 50, Mismatches: 10, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
28 6 0.12
29 42 0.84
30 2 0.04
ACGTcount: A:0.27, C:0.29, G:0.13, T:0.31
Consensus pattern (28 bp):
ATATGGCCCATTAGGCCCAAATCACCTT
Done.